annotate test-data/test_tool_usage @ 0:9bf25dbe00ad draft

"planemo upload for repository https://github.com/bgruening/galaxytools/tree/recommendation_training/tools/tool_recommendation_model commit 7fac577189d01cedd01118a77fc2baaefe7d5cad"
author bgruening
date Wed, 28 Aug 2019 07:19:38 -0400
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children 76251d1ccdcc
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1804 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_plot_correlation/deeptools_plot_correlation/2.5.7.0 2019-01-01 6
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1807 toolshed.g2.bx.psu.edu/repos/guru-ananda/karyotype_plot/karyotype_Plot_1/1.0.0 2019-01-01 6
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1809 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_decoydatabase/DecoyDatabase/2.3.0 2019-01-01 6
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1812 toolshed.g2.bx.psu.edu/repos/iuc/gemini_annotate/gemini_annotate/0.20.1+galaxy1 2019-01-01 6
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1818 toolshed.g2.bx.psu.edu/repos/devteam/fastq_trimmer_by_quality/fastq_quality_trimmer/1.1.1 2019-01-01 6
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1819 toolshed.g2.bx.psu.edu/repos/iuc/qiime_align_seqs/qiime_align_seqs/1.9.1.0 2019-01-01 6
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1820 toolshed.g2.bx.psu.edu/repos/iuc/qiime_filter_alignment/qiime_filter_alignment/1.9.1.0 2019-01-01 6
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1823 toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.2.6 2019-01-01 6
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1824 toolshed.g2.bx.psu.edu/repos/iuc/describe_samples/describe_samples/2.8.4 2019-01-01 6
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1826 toolshed.g2.bx.psu.edu/repos/bgruening/infernal/infernal_cmsearch/1.1.2.0 2019-01-01 6
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1827 toolshed.g2.bx.psu.edu/repos/iuc/kallisto_quant/kallisto_quant/0.43.1.4 2019-01-01 6
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1829 toolshed.g2.bx.psu.edu/repos/bgruening/sklearn_svm_classifier/sklearn_svm_classifier/0.9 2019-01-01 6
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1830 toolshed.g2.bx.psu.edu/repos/iuc/gffcompare/gffcompare/0.9.8+galaxy1 2019-01-01 6
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1831 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_isobaricanalyzer/IsobaricAnalyzer/2.3.0 2019-01-01 6
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1832 toolshed.g2.bx.psu.edu/repos/rnateam/viennarna_rnafold/viennarna_rnafold/2.2.10.4 2019-01-01 6
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1835 toolshed.g2.bx.psu.edu/repos/devteam/fastq_quality_boxplot/cshl_fastq_quality_boxplot/1.0.1 2019-01-01 6
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1837 toolshed.g2.bx.psu.edu/repos/rnateam/paralyzer/paralyzer/1.5 2019-01-01 6
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1838 toolshed.g2.bx.psu.edu/repos/iuc/mothur_summary_seqs/mothur_summary_seqs/1.36.1.0 2019-01-01 6
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1841 toolshed.g2.bx.psu.edu/repos/iuc/snippy/snippy_core/3.2 2019-01-01 5
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1843 toolshed.g2.bx.psu.edu/repos/fgiacomoni/lipidmaps_textsearch/lipidmaps/2018-10-02 2019-01-01 5
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1844 toolshed.g2.bx.psu.edu/repos/iuc/umi_tools_whitelist/umi_tools_whitelist/0.5.3.1 2019-01-01 5
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1852 toolshed.g2.bx.psu.edu/repos/bgruening/column_arrange_by_header/bg_column_arrange_by_header/0.1 2019-01-01 5
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1855 toolshed.g2.bx.psu.edu/repos/bgruening/sklearn_data_preprocess/sklearn_data_preprocess/1.0 2019-01-01 5
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1856 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_bam_stat/2.6.4 2019-01-01 5
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1858 toolshed.g2.bx.psu.edu/repos/iuc/macs2/macs2_randsample/2.1.1.20160309.0 2019-01-01 5
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1862 toolshed.g2.bx.psu.edu/repos/iuc/mothur_fastq_info/mothur_fastq_info/1.39.5.0 2019-01-01 5
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1863 CONVERTER_gff_to_interval_index_0 2019-01-01 5
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1944 toolshed.g2.bx.psu.edu/repos/peterjc/tmhmm_and_signalp/rxlr_motifs/0.0.14 2019-01-01 3
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1950 toolshed.g2.bx.psu.edu/repos/rnateam/cmv/cmv/1.0.8 2019-01-01 3
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1951 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_shufflebed/2.27.0.0 2019-01-01 3
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1952 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_DownsampleSam/2.18.2.1 2019-01-01 3
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1953 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_msgfplusadapter/MSGFPlusAdapter/2.2.0 2019-01-01 3
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1954 toolshed.g2.bx.psu.edu/repos/iuc/gemini_db_info/gemini_db_info/0.18.1.1 2019-01-01 3
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1955 toolshed.g2.bx.psu.edu/repos/bgruening/sklearn_svm_classifier/sklearn_svm_classifier/1.0 2019-01-01 3
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1956 toolshed.g2.bx.psu.edu/repos/galaxyp/msi_combine/mass_spectrometry_imaging_combine/1.10.0.5 2019-01-01 3
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1957 toolshed.g2.bx.psu.edu/repos/iuc/gemini_db_info/gemini_db_info/0.18.1.0 2019-01-01 3
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1958 toolshed.g2.bx.psu.edu/repos/iuc/fgsea/fgsea/1.6.0 2019-01-01 3
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1959 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_BedToIntervalList/2.18.2.1 2019-01-01 3
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1960 toolshed.g2.bx.psu.edu/repos/iuc/mothur_unique_seqs/mothur_unique_seqs/1.36.1.0 2019-01-01 3
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1961 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_featurefindermultiplex/FeatureFinderMultiplex/2.3.0 2019-01-01 3
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1962 toolshed.g2.bx.psu.edu/repos/iuc/mothur_make_biom/mothur_make_biom/1.39.5.0 2019-01-01 3
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1963 toolshed.g2.bx.psu.edu/repos/iuc/macs2/macs2_bdgpeakcall/2.1.1.20160309.0 2019-01-01 3
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1964 toolshed.g2.bx.psu.edu/repos/iuc/mothur_filter_seqs/mothur_filter_seqs/1.36.1.0 2019-01-01 3
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1965 toolshed.g2.bx.psu.edu/repos/iuc/mothur_make_biom/mothur_make_biom/1.36.1.0 2019-01-01 3
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1966 toolshed.g2.bx.psu.edu/repos/iuc/khmer_abundance_distribution_single/khmer_abundance_distribution_single/2.0.0 2019-01-01 3
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1967 toolshed.g2.bx.psu.edu/repos/iuc/meme_dreme/meme_dreme/4.11.2.0 2019-01-01 3
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1968 toolshed.g2.bx.psu.edu/repos/iuc/mothur_count_seqs/mothur_count_seqs/1.36.1.0 2019-01-01 3
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1969 toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.4.1 2019-01-01 3
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1970 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_peakpickerhires/PeakPickerHiRes/2.3.0 2019-01-01 3
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1971 toolshed.g2.bx.psu.edu/repos/iuc/gemini_amend/gemini_amend/0.20.1 2019-01-01 3
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1972 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_featurefindermultiplex/FeatureFinderMultiplex/2.2.0 2019-01-01 3
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1973 toolshed.g2.bx.psu.edu/repos/iuc/humann2_renorm_table/humann2_renorm_table/0.11.1.0 2019-01-01 3
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1974 toolshed.g2.bx.psu.edu/repos/iuc/deseq2/deseq2/2.11.40.3 2019-01-01 3
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1975 toolshed.g2.bx.psu.edu/repos/iuc/gemini_actionable_mutations/gemini_actionable_mutations/0.18.1.0 2019-01-01 3
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1976 toolshed.g2.bx.psu.edu/repos/iuc/ucsc_fasplit/fasplit/357 2019-01-01 3
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1978 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_idmapper/IDMapper/2.2.0 2019-01-01 3
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1979 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_idfilter/IDFilter/2.2.0 2019-01-01 3
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1981 toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpEff_databases/4.3r.1 2019-01-01 3
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1982 toolshed.g2.bx.psu.edu/repos/devteam/tabular_to_fastq/tabular_to_fastq/1.0.0 2019-01-01 3
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1983 toolshed.g2.bx.psu.edu/repos/devteam/vcf2pgsnp/vcf2pgSnp/1.0.0 2019-01-01 3
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1984 toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_base_recalibrator/2.8.0 2019-01-01 3
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1985 toolshed.g2.bx.psu.edu/repos/bgruening/nanopolish_variants/nanopolish_variants/0.1.0 2019-01-01 3
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1986 __SORTLIST__ 2019-01-01 3
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1987 toolshed.g2.bx.psu.edu/repos/rnateam/structure_to_gspan/structure_to_gspan/0.3 2019-01-01 3
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1988 toolshed.g2.bx.psu.edu/repos/iuc/mothur_get_groups/mothur_get_groups/1.39.5.0 2019-01-01 3
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1989 srma_wrapper 2019-01-01 3
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1990 toolshed.g2.bx.psu.edu/repos/iuc/mothur_classify_otu/mothur_classify_otu/1.36.1.0 2019-01-01 3
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1991 toolshed.g2.bx.psu.edu/repos/devteam/ucsc_custom_track/build_ucsc_custom_track_1/1.0.0 2019-01-01 3
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1992 toolshed.g2.bx.psu.edu/repos/miller-lab/genome_diversity/gd_multiple_to_gd_genotype/1.0.0 2019-01-01 3
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1993 toolshed.g2.bx.psu.edu/repos/iuc/jbrowse/jbrowse/1.12.5+galaxy3 2019-01-01 3
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1994 toolshed.g2.bx.psu.edu/repos/bgruening/diffbind/diffbind/2.6.6.4 2019-01-01 3
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1995 toolshed.g2.bx.psu.edu/repos/devteam/gi2taxonomy/Fetch Taxonomic Ranks/1.1.0 2019-01-01 3
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1996 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_highresprecursormasscorrector/HighResPrecursorMassCorrector/2.2.0 2019-01-01 3
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1997 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_proteinquantifier/ProteinQuantifier/2.2.0 2019-01-01 3
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1998 toolshed.g2.bx.psu.edu/repos/iuc/goseq/goseq/1.26.0 2019-01-01 3
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1999 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_peptideindexer/PeptideIndexer/2.2.0 2019-01-01 3
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2000 toolshed.g2.bx.psu.edu/repos/iuc/mothur_cluster/mothur_cluster/1.39.5.0 2019-01-01 3
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2001 toolshed.g2.bx.psu.edu/repos/iuc/stacks_denovomap/stacks_denovomap/1.46.0 2019-01-01 3
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2002 toolshed.g2.bx.psu.edu/repos/rnateam/graphclust_nspdk/nspdk_sparse/9.2.2 2019-01-01 3
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2003 toolshed.g2.bx.psu.edu/repos/devteam/samtools_flagstat/samtools_flagstat/2.0.1 2019-01-01 3
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2004 toolshed.g2.bx.psu.edu/repos/iuc/mothur_align_seqs/mothur_align_seqs/1.36.1.0 2019-01-01 3
9bf25dbe00ad "planemo upload for repository https://github.com/bgruening/galaxytools/tree/recommendation_training/tools/tool_recommendation_model commit 7fac577189d01cedd01118a77fc2baaefe7d5cad"
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2005 toolshed.g2.bx.psu.edu/repos/iuc/migmap/migmap/1.0.2.2 2019-01-01 3
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2006 toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hicplotdistvscounts/hicexplorer_hicplotdistvscounts/2.1.4.0 2019-01-01 3
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2007 toolshed.g2.bx.psu.edu/repos/devteam/fastq_stats/fastq_stats/1.0.0 2019-01-01 3
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2008 toolshed.g2.bx.psu.edu/repos/iuc/mothur_pre_cluster/mothur_pre_cluster/1.36.1.0 2019-01-01 3
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2009 toolshed.g2.bx.psu.edu/repos/wolma/mimodd_main/mimodd_convert/0.1.8_1 2019-01-01 3
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2010 toolshed.g2.bx.psu.edu/repos/iuc/fastp/fastp/0.19.3.3 2019-01-01 3
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2011 toolshed.g2.bx.psu.edu/repos/devteam/varscan_version_2/varscan/0.1 2019-01-01 3
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2012 toolshed.g2.bx.psu.edu/repos/bgruening/plotly_ml_performance_plots/plotly_ml_performance_plots/0.1 2019-01-01 3
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2013 toolshed.g2.bx.psu.edu/repos/iuc/mothur_remove_rare/mothur_remove_rare/1.39.5.0 2019-01-01 3
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2014 toolshed.g2.bx.psu.edu/repos/devteam/cuffnorm/cuffnorm/2.2.1.2 2019-01-01 3
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2015 toolshed.g2.bx.psu.edu/repos/devteam/samtools_idxstats/samtools_idxstats/2.0.1 2019-01-01 3
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2016 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_subtractbed/2.27.0.0 2019-01-01 3
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2017 toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hicmergematrixbins/hicexplorer_hicmergematrixbins/2.1.4.0 2019-01-01 3
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2018 toolshed.g2.bx.psu.edu/repos/rnateam/graphclust_nspdk/NSPDK_candidateClust/9.2.2 2019-01-01 3
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2019 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/1.136.0 2019-01-01 3
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2020 toolshed.g2.bx.psu.edu/repos/devteam/fastx_nucleotides_distribution/cshl_fastx_nucleotides_distribution/1.0.1 2019-01-01 3
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2021 __RELABEL_FROM_FILE__ 2019-01-01 3
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2022 toolshed.g2.bx.psu.edu/repos/iuc/trinity_contig_exn50_statistic/trinity_contig_exn50_statistic/2.8.4 2019-01-01 3
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2023 toolshed.g2.bx.psu.edu/repos/rnateam/graphclust_postprocessing/glob_report/0.4 2019-01-01 3
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2024 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicatesWithMateCigar/2.18.2.1 2019-01-01 3
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2025 toolshed.g2.bx.psu.edu/repos/iuc/mothur_classify_seqs/mothur_classify_seqs/1.36.1.0 2019-01-01 3
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2026 toolshed.g2.bx.psu.edu/repos/devteam/cummerbund_to_tabular/cummerbund_to_cuffdiff/1.0.1 2019-01-01 3
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2027 toolshed.g2.bx.psu.edu/repos/iuc/sickle/sickle/1.33.1 2019-01-01 3
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2028 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_idposteriorerrorprobability/IDPosteriorErrorProbability/2.2.0 2019-01-01 3
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2029 toolshed.g2.bx.psu.edu/repos/rnateam/graphclust_prepocessing_for_mlocarna/preMloc/0.3 2019-01-01 3
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2030 toolshed.g2.bx.psu.edu/repos/saskia-hiltemann/krona_text/krona-text/1 2019-01-01 3
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2031 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_filefilter/FileFilter/2.2.0 2019-01-01 3
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2032 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_idscoreswitcher/IDScoreSwitcher/2.2.0 2019-01-01 3
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2033 toolshed.g2.bx.psu.edu/repos/iuc/mothur_seq_error/mothur_seq_error/1.39.5.0 2019-01-01 3
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2034 toolshed.g2.bx.psu.edu/repos/devteam/emboss_5/EMBOSS: water107/5.0.0.1 2019-01-01 3
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2035 toolshed.g2.bx.psu.edu/repos/iuc/bwameth/bwameth/0.2.0.3 2019-01-01 3
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2036 toolshed.g2.bx.psu.edu/repos/iuc/gubbins/gubbins/0.1.0 2019-01-01 3
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2037 toolshed.g2.bx.psu.edu/repos/devteam/fastx_quality_statistics/cshl_fastx_quality_statistics/1.0.1 2019-01-01 3
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2038 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_plot_profile/deeptools_plot_profile/2.5.1.1.0 2019-01-01 3
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2039 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_filefilter/FileFilter/2.3.0 2019-01-01 3
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2040 toolshed.g2.bx.psu.edu/repos/devteam/emboss_5/EMBOSS: transeq101/5.0.0 2019-01-01 3
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2041 toolshed.g2.bx.psu.edu/repos/gbcs-embl-heidelberg/je_demultiplex/je_demultiplex/1.2.1 2019-01-01 2
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2042 gtf_filter_by_attribute_values_list 2019-01-01 2
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2043 toolshed.g2.bx.psu.edu/repos/anton/vcfannotate/vcfannotate/0.0.1 2019-01-01 2
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2044 toolshed.g2.bx.psu.edu/repos/peterjc/tmhmm_and_signalp/signalp3/0.0.19 2019-01-01 2
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2045 toolshed.g2.bx.psu.edu/repos/miller-lab/genome_diversity/gd_make_gd_file/1.0.0 2019-01-01 2
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2046 toolshed.g2.bx.psu.edu/repos/jjohnson/translate_bed_sequences/translate_bed_sequences/0.0.1 2019-01-01 2
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2047 toolshed.g2.bx.psu.edu/repos/bgruening/openbabel/ctb_ob_genProp/1.0 2019-01-01 2
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2048 qual_stats_boxplot 2019-01-01 2
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2049 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_annotatebed/2.27.1 2019-01-01 2
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2050 toolshed.g2.bx.psu.edu/repos/iuc/ebi_search_rest_results/ebi_search_rest_results/0.1.1 2019-01-01 2
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2051 toolshed.g2.bx.psu.edu/repos/iuc/gemini_roh/gemini_roh/0.20.1 2019-01-01 2
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2052 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_BamIndexStats/1.56.0 2019-01-01 2
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2053 toolshed.g2.bx.psu.edu/repos/bgruening/sailfish/sailfish/0.10.1.1 2019-01-01 2
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2054 toolshed.g2.bx.psu.edu/repos/wolma/mimodd_main/mimodd_covstats/0.1.8_1 2019-01-01 2
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2055 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_geneBody_coverage2/2.6.4.1 2019-01-01 2
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2056 toolshed.g2.bx.psu.edu/repos/iuc/qiime_summarize_taxa_through_plots/qiime_summarize_taxa_through_plots/1.9.1.0 2019-01-01 2
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2057 toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_cut_tool/1.0.0 2019-01-01 2
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2058 toolshed.g2.bx.psu.edu/repos/galaxyp/uniprotxml_downloader/uniprotxml_downloader/2.0.0 2019-01-01 2
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2211 toolshed.g2.bx.psu.edu/repos/iuc/gemini_de_novo/gemini_de_novo/0.18.1.0 2019-01-01 1
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2212 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_QualityScoreDistribution/2.18.2.1 2019-01-01 1
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2214 toolshed.g2.bx.psu.edu/repos/iuc/gemini_comp_hets/gemini_comp_hets/0.18.1.0 2019-01-01 1
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2216 toolshed.g2.bx.psu.edu/repos/devteam/vcftools_annotate/vcftools_annotate/0.1 2019-01-01 1
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2217 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_filemerger/FileMerger/2.3.0 2019-01-01 1
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2219 toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_variant_select/2.8.0 2019-01-01 1
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2224 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_RevertSam/2.18.2.1 2019-01-01 1
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2231 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_complementbed/2.27.0.0 2019-01-01 1
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2232 toolshed.g2.bx.psu.edu/repos/galaxyp/bed_to_protein_map/bed_to_protein_map/0.1.0 2019-01-01 1
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2234 toolshed.g2.bx.psu.edu/repos/anton/vcfbedintersect/vcfbedintersect/0.0.2 2019-01-01 1
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2405 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_peptideindexer/PeptideIndexer/2.3.0 2018-12-01 111
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2407 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_idfilter/IDFilter/2.3.0 2018-12-01 110
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2409 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_proteinquantifier/ProteinQuantifier/2.3.0 2018-12-01 110
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2415 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_idmapper/IDMapper/2.3.0 2018-12-01 104
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2420 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_idconflictresolver/IDConflictResolver/2.3.0 2018-12-01 103
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2510 wc_gnu 2018-12-01 38
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2511 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_bamtobed/2.27.0.0 2018-12-01 38
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2512 toolshed.g2.bx.psu.edu/repos/devteam/fastx_trimmer/cshl_fastx_trimmer/1.0.2 2018-12-01 37
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2513 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_plot_pca/deeptools_plot_pca/3.1.2.0.0 2018-12-01 36
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2514 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_geneBody_coverage/2.6.4.3 2018-12-01 36
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2515 toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.3.2.2 2018-12-01 36
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2516 toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_find_and_replace/1.1.1 2018-12-01 36
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2517 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_read_distribution/2.6.4.1 2018-12-01 36
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2518 toolshed.g2.bx.psu.edu/repos/devteam/bowtie_wrappers/bowtie_wrapper/1.2.0 2018-12-01 34
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2519 toolshed.g2.bx.psu.edu/repos/iuc/mothur_make_fastq/mothur_make_fastq/1.36.1.0 2018-12-01 34
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2520 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_CASM/2.18.2.1 2018-12-01 34
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2521 toolshed.g2.bx.psu.edu/repos/iuc/roary/roary/3.10.2 2018-12-01 33
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2522 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastp_wrapper/0.3.1 2018-12-01 33
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2524 toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_replace_in_column/1.1.0 2018-12-01 33
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2525 toolshed.g2.bx.psu.edu/repos/devteam/cufflinks/cufflinks/2.2.1.2 2018-12-01 32
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2526 CONVERTER_bed_to_gff_0 2018-12-01 32
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2527 toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/1.16.1 2018-12-01 32
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2528 toolshed.g2.bx.psu.edu/repos/devteam/samtools_stats/samtools_stats/2.0.1 2018-12-01 32
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2529 toolshed.g2.bx.psu.edu/repos/bgruening/graphicsmagick_image_convert/graphicsmagick_image_convert/1.3.26 2018-12-01 32
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2530 toolshed.g2.bx.psu.edu/repos/iuc/mothur_summary_seqs/mothur_summary_seqs/1.39.5.0 2018-12-01 32
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2531 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_SortSam/2.18.2.1 2018-12-01 31
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2532 toolshed.g2.bx.psu.edu/repos/devteam/weblogo3/rgweblogo3/3.5.0 2018-12-01 31
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2533 toolshed.g2.bx.psu.edu/repos/devteam/varscan_version_2/varscan/2.4.2 2018-12-01 31
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2535 toolshed.g2.bx.psu.edu/repos/iuc/raceid_inspectclusters/raceid_inspectclusters/3.0.2.1 2018-12-01 31
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2536 toolshed.g2.bx.psu.edu/repos/devteam/coverage/gops_coverage_1/1.0.0 2018-12-01 31
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2537 toolshed.g2.bx.psu.edu/repos/devteam/correlation/cor2/1.0.0 2018-12-01 31
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2538 toolshed.g2.bx.psu.edu/repos/devteam/cuffmerge/cuffmerge/2.2.1.1 2018-12-01 30
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2539 toolshed.g2.bx.psu.edu/repos/earlhaminst/t_coffee/t_coffee/11.0.8 2018-12-01 30
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2540 toolshed.g2.bx.psu.edu/repos/iuc/raceid_trajectory/raceid_trajectory/3.0.2.1 2018-12-01 30
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2541 toolshed.g2.bx.psu.edu/repos/iuc/limma_voom/limma_voom/3.34.9.9 2018-12-01 30
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2542 toolshed.g2.bx.psu.edu/repos/iuc/unicycler/unicycler/0.4.6.0 2018-12-01 30
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2543 toolshed.g2.bx.psu.edu/repos/eschen42/w4mcorcov/w4mcorcov/0.98.17 2018-12-01 30
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2545 toolshed.g2.bx.psu.edu/repos/rnateam/blockclust/blockclust/1.1.0 2018-12-01 29
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2546 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_genomecoveragebed_bedgraph/2.19.0 2018-12-01 28
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2547 toolshed.g2.bx.psu.edu/repos/iuc/kobas/kobas_annotate/0.4 2018-12-01 28
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2548 toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hicfindtads/hicexplorer_hicfindtads/2.1.4.0 2018-12-01 28
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2549 toolshed.g2.bx.psu.edu/repos/earlhaminst/treebest_best/treebest_best_wrapper/1.9.2 2018-12-01 28
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2551 toolshed.g2.bx.psu.edu/repos/bgruening/sklearn_build_pipeline/sklearn_build_pipeline/0.9 2018-12-01 28
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2552 toolshed.g2.bx.psu.edu/repos/nml/spades/spades/3.12.0+galaxy1 2018-12-01 27
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2553 toolshed.g2.bx.psu.edu/repos/miller-lab/genome_diversity/gd_cluster_kegg/1.0.0 2018-12-01 27
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2554 toolshed.g2.bx.psu.edu/repos/nml/collapse_collections/collapse_dataset/4.0 2018-12-01 27
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2555 toolshed.g2.bx.psu.edu/repos/devteam/samtools_mpileup/samtools_mpileup/2.1.3 2018-12-01 27
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2557 toolshed.g2.bx.psu.edu/repos/bgruening/sklearn_searchcv/sklearn_searchcv/0.9 2018-12-01 26
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2558 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_getfastabed/2.27.0.1 2018-12-01 26
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2559 toolshed.g2.bx.psu.edu/repos/devteam/concat/gops_concat_1/1.0.1 2018-12-01 26
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2560 toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_replace_in_line/1.1.1 2018-12-01 25
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2562 toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_multijoin_tool/1.1.1 2018-12-01 25
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2563 toolshed.g2.bx.psu.edu/repos/iuc/minimap2/minimap2/2.12 2018-12-01 25
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2564 CONVERTER_bam_to_coodinate_sorted_bam 2018-12-01 24
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2565 toolshed.g2.bx.psu.edu/repos/iuc/mothur_screen_seqs/mothur_screen_seqs/1.39.5.0 2018-12-01 24
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2566 toolshed.g2.bx.psu.edu/repos/iuc/seqtk/seqtk_mergefa/1.3.0 2018-12-01 24
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2567 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_FPKM_count/2.6.4.1 2018-12-01 24
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2568 toolshed.g2.bx.psu.edu/repos/iuc/ggplot2_violin/ggplot2_violin/2.2.1+galaxy0 2018-12-01 24
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2569 toolshed.g2.bx.psu.edu/repos/iuc/datamash_ops/datamash_ops/datamash_ops/1.0.6 2018-12-01 24
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2570 toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpEff/4.0.0 2018-12-01 24
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2571 toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hicaggregatecontacts/hicexplorer_hicaggregatecontacts/2.1.4.0 2018-12-01 24
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2572 toolshed.g2.bx.psu.edu/repos/iuc/mothur_heatmap_sim/mothur_heatmap_sim/1.39.5.0 2018-12-01 24
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2573 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_fileinfo/FileInfo/2.2.0 2018-12-01 24
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2574 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_falsediscoveryrate/FalseDiscoveryRate/2.2.0 2018-12-01 24
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2578 CONVERTER_bam_to_bigwig_0 2018-12-01 23
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2583 toolshed.g2.bx.psu.edu/repos/iuc/mothur_screen_seqs/mothur_screen_seqs/1.36.1.0 2018-12-01 22
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2590 toolshed.g2.bx.psu.edu/repos/bgruening/sklearn_svm_classifier/sklearn_svm_classifier/0.9 2018-12-01 21
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2621 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_bam_stat/2.6.4 2018-12-01 18
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2769 toolshed.g2.bx.psu.edu/repos/peterjc/tmhmm_and_signalp/tmhmm2/0.0.16 2018-12-01 9
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2770 toolshed.g2.bx.psu.edu/repos/iuc/jbrowse/jbrowse/1.12.5+galaxy1 2018-12-01 9
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2773 toolshed.g2.bx.psu.edu/repos/iuc/trinity_super_transcripts/trinity_super_transcripts/2.8.4 2018-12-01 9
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2776 toolshed.g2.bx.psu.edu/repos/bgruening/trim_galore/trim_galore/0.4.2 2018-12-01 9
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2777 toolshed.g2.bx.psu.edu/repos/devteam/fastq_stats/fastq_stats/1.0.0 2018-12-01 9
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2778 toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_filtering/cardinal_filtering/1.12.1.1 2018-12-01 8
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2779 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_DownsampleSam/2.18.2.1 2018-12-01 8
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2782 toolshed.g2.bx.psu.edu/repos/devteam/fastq_stats/fastq_stats/1.1.1 2018-12-01 8
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2784 toolshed.g2.bx.psu.edu/repos/iuc/gemini_comp_hets/gemini_comp_hets/0.18.1.0 2018-12-01 8
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2788 toolshed.g2.bx.psu.edu/repos/iuc/mageck_test/mageck_test/0.5.7.1 2018-12-01 8
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2789 toolshed.g2.bx.psu.edu/repos/iuc/dexseq/dexseq_count/1.24.0.0 2018-12-01 8
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2790 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_slopbed/2.27.0.0 2018-12-01 8
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2791 toolshed.g2.bx.psu.edu/repos/iuc/mothur_count_seqs/mothur_count_seqs/1.39.5.0 2018-12-01 8
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2792 toolshed.g2.bx.psu.edu/repos/galaxyp/msconvert_nix/msconvert_nix/3.0.9992.0 2018-12-01 8
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2793 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_bam2wig/2.6.4 2018-12-01 8
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2794 CONVERTER_bam_to_qname_sorted_bam 2018-12-01 8
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2795 toolshed.g2.bx.psu.edu/repos/iuc/mothur_align_seqs/mothur_align_seqs/1.39.5.0 2018-12-01 8
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2797 toolshed.g2.bx.psu.edu/repos/bgruening/augustus/augustus/3.2.3 2018-12-01 8
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2798 toolshed.g2.bx.psu.edu/repos/devteam/fastq_to_tabular/fastq_to_tabular/1.1.0 2018-12-01 8
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2823 toolshed.g2.bx.psu.edu/repos/galaxyp/reactome_pathwaymatcher/reactome_pathwaymatcher/1.8.1.2 2018-12-01 6
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2830 toolshed.g2.bx.psu.edu/repos/iuc/mothur_remove_lineage/mothur_remove_lineage/1.39.5.0 2018-12-01 6
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2838 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_BamIndexStats/1.56.0 2018-12-01 6
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2894 toolshed.g2.bx.psu.edu/repos/devteam/fastqtofasta/fastq_to_fasta_python/1.1.1 2018-12-01 5
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2895 toolshed.g2.bx.psu.edu/repos/peterjc/seq_filter_by_mapping/seq_filter_by_mapping/0.0.6 2018-12-01 5
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2896 toolshed.g2.bx.psu.edu/repos/iuc/mothur_sub_sample/mothur_sub_sample/1.39.5.0 2018-12-01 5
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2897 CONVERTER_len_to_linecount 2018-12-01 5
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2898 toolshed.g2.bx.psu.edu/repos/iuc/metagenomeseq_normalization/metagenomeseq_normalizaton/1.16.0-0.0.1 2018-12-01 5
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2899 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_plot_profile/deeptools_plot_profile/3.0.2.0 2018-12-01 5
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2901 toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.3.1 2018-12-01 5
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2903 toolshed.g2.bx.psu.edu/repos/devteam/pileup_parser/pileup_parser/1.0.2 2018-12-01 5
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2905 toolshed.g2.bx.psu.edu/repos/iuc/qiime_pick_otus/qiime_pick_otus/1.9.1.0 2018-12-01 5
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2906 toolshed.g2.bx.psu.edu/repos/bgruening/svm_classifier/svm_classifier/0.9 2018-12-01 5
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2907 toolshed.g2.bx.psu.edu/repos/iuc/mothur_remove_groups/mothur_remove_groups/1.39.5.0 2018-12-01 5
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2909 toolshed.g2.bx.psu.edu/repos/anton/vcfcombine/vcfcombine/0.0.1 2018-12-01 4
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2910 CONVERTER_vcf_to_tabix_0 2018-12-01 4
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2911 toolshed.g2.bx.psu.edu/repos/iuc/metaphlan2krona/metaphlan2krona/2.6.0.0 2018-12-01 4
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2912 toolshed.g2.bx.psu.edu/repos/iuc/qiime_core_diversity/qiime_core_diversity/1.9.1.0 2018-12-01 4
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2913 toolshed.g2.bx.psu.edu/repos/chemteam/bio3d_pca/bio3d_pca/2.3 2018-12-01 4
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2914 toolshed.g2.bx.psu.edu/repos/iuc/extract_genomic_dna/Extract genomic DNA 1/3.0.2 2018-12-01 4
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2915 toolshed.g2.bx.psu.edu/repos/galaxyp/msconvert/msconvert_nix/3.0.0 2018-12-01 4
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2916 toolshed.g2.bx.psu.edu/repos/gbcs-embl-heidelberg/je_markdupes/je_markdupes/1.2.1 2018-12-01 4
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2917 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bam_pe_fragmentsize/deeptools_bam_pe_fragmentsize/3.0.2.0 2018-12-01 4
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2918 toolshed.g2.bx.psu.edu/repos/bgruening/sailfish/sailfish/0.10.1.1 2018-12-01 4
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2919 toolshed.g2.bx.psu.edu/repos/iuc/mothur_dist_shared/mothur_dist_shared/1.39.5.0 2018-12-01 4
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2920 toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_sorted_uniq/1.1.0 2018-12-01 4
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2921 toolshed.g2.bx.psu.edu/repos/devteam/emboss_5/EMBOSS: getorf42/5.0.0.1 2018-12-01 4
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2922 toolshed.g2.bx.psu.edu/repos/devteam/cuffnorm/cuffnorm/2.2.1.2 2018-12-01 4
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2923 toolshed.g2.bx.psu.edu/repos/devteam/xy_plot/XY_Plot_1/1.0.2 2018-12-01 4
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2924 toolshed.g2.bx.psu.edu/repos/galaxyp/thermo_raw_file_converter/thermo_raw_file_converter/0.0.1 2018-12-01 4
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2925 toolshed.g2.bx.psu.edu/repos/iuc/dexseq/dexseq_count/1.26.0.0 2018-12-01 4
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2926 toolshed.g2.bx.psu.edu/repos/iuc/abricate/abricate/0.8 2018-12-01 4
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2927 toolshed.g2.bx.psu.edu/repos/iuc/mothur_summary_single/mothur_summary_single/1.39.5.0 2018-12-01 4
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2928 toolshed.g2.bx.psu.edu/repos/devteam/samtools_calmd/samtools_calmd/2.0.2 2018-12-01 4
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2929 toolshed.g2.bx.psu.edu/repos/iuc/varscan_mpileup/varscan_mpileup/2.4.3.1 2018-12-01 4
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2930 toolshed.g2.bx.psu.edu/repos/rnateam/peakachu/peakachu/0.1.0.1 2018-12-01 4
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2931 toolshed.g2.bx.psu.edu/repos/iuc/trinity_analyze_diff_expr/trinity_analyze_diff_expr/2.8.4 2018-12-01 4
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2932 toolshed.g2.bx.psu.edu/repos/iuc/msaboot/msaboot/0.1.2 2018-12-01 4
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2933 toolshed.g2.bx.psu.edu/repos/peterjc/tmhmm_and_signalp/wolf_psort/0.0.11 2018-12-01 4
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2935 toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hicplotviewpoint/hicexplorer_hicplotviewpoint/2.1.4.0 2018-12-01 4
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2936 toolshed.g2.bx.psu.edu/repos/rnateam/graphclust_postprocessing_no_align/graphclust_glob_report_no_align/0.5 2018-12-01 4
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2937 toolshed.g2.bx.psu.edu/repos/iuc/qiime_summarize_taxa_through_plots/qiime_summarize_taxa_through_plots/1.9.1.0 2018-12-01 4
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2938 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_mascotadapter/MascotAdapter/2.3.0 2018-12-01 4
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2939 toolshed.g2.bx.psu.edu/repos/peterjc/blast_rbh/blast_reciprocal_best_hits/0.1.11 2018-12-01 4
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2940 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_FastqToSam/2.18.2.1 2018-12-01 4
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2941 toolshed.g2.bx.psu.edu/repos/iuc/scpipe/scpipe/1.0.0 2018-12-01 4
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2942 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_mztabexporter/MzTabExporter/2.3.0 2018-12-01 4
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2943 toolshed.g2.bx.psu.edu/repos/jjohnson/rsem/extract_transcript_to_gene_map_from_trinity/1.1.17 2018-12-01 4
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2944 toolshed.g2.bx.psu.edu/repos/iuc/structure/structure/2.3.4 2018-12-01 4
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2945 toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpSift_filter/3.4 2018-12-01 4
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2946 toolshed.g2.bx.psu.edu/repos/iuc/qiime_validate_mapping_file/qiime_validate_mapping_file/1.9.1.0 2018-12-01 4
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2947 toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_filtering/cardinal_filtering/1.12.1.0 2018-12-01 4
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2948 toolshed.g2.bx.psu.edu/repos/iuc/qiime_pick_open_reference_otus/qiime_pick_open_reference_otus/1.9.1.0 2018-12-01 4
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2949 toolshed.g2.bx.psu.edu/repos/devteam/samtools_mpileup/samtools_mpileup/2.1.1 2018-12-01 4
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2950 toolshed.g2.bx.psu.edu/repos/iuc/column_remove_by_header/column_remove_by_header/0.0.1 2018-12-01 4
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2951 toolshed.g2.bx.psu.edu/repos/iuc/poretools_qualdist/poretools_qualdist/0.6.1a1.0 2018-12-01 4
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2952 toolshed.g2.bx.psu.edu/repos/iuc/megahit/megahit/1.1.2.3 2018-12-01 4
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2953 toolshed.g2.bx.psu.edu/repos/iuc/deseq2/deseq2/2.11.40.1 2018-12-01 4
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2954 toolshed.g2.bx.psu.edu/repos/devteam/vcfgenotypes/vcfgenotypes/1.0.0_rc1+galaxy0 2018-12-01 4
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2955 ucsc_table_direct_archaea1 2018-12-01 4
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2956 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_multi_bigwig_summary/deeptools_multi_bigwig_summary/3.0.1.0 2018-12-01 4
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3021 toolshed.g2.bx.psu.edu/repos/iuc/export2graphlan/export2graphlan/0.19 2018-12-01 3
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3085 toolshed.g2.bx.psu.edu/repos/iuc/ebi_search_rest_results/ebi_search_rest_results/0.1.1 2018-12-01 2
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3086 CONVERTER_biom2_to_biom1 2018-12-01 2
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3087 toolshed.g2.bx.psu.edu/repos/iuc/ococo/ococo/0.1.2.6 2018-12-01 2
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3089 toolshed.g2.bx.psu.edu/repos/iuc/iqtree/iqtree/1.5.5.1 2018-12-01 2
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3090 toolshed.g2.bx.psu.edu/repos/devteam/samtools_sort/samtools_sort/2.0.1 2018-12-01 2
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3091 toolshed.g2.bx.psu.edu/repos/pjbriggs/trimmomatic/trimmomatic/0.36.4 2018-12-01 2
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3092 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_SamToFastq/2.18.2.1 2018-12-01 2
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3094 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_idfileconverter/IDFileConverter/2.3.0 2018-12-01 2
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3095 toolshed.g2.bx.psu.edu/repos/devteam/picard/rgPicFixMate/1.56.0 2018-12-01 2
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3100 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_FilterSamReads/2.18.2.1 2018-12-01 2
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3102 toolshed.g2.bx.psu.edu/repos/iuc/varscan_mpileup/varscan_mpileup/2.4.3.0 2018-12-01 2
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3103 toolshed.g2.bx.psu.edu/repos/galaxyp/flashlfq/flashlfq/0.1.99 2018-12-01 2
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3110 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_CollectInsertSizeMetrics/2.7.1.0 2018-12-01 2
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3116 toolshed.g2.bx.psu.edu/repos/iuc/graphlan_annotate/graphlan_annotate/1.0.0.0 2018-12-01 2
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3119 toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_spectra_plots/cardinal_spectra_plots/1.12.1.1 2018-12-01 1
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3120 toolshed.g2.bx.psu.edu/repos/rnateam/viennarna_rnapkplex/viennarna_rnapkplex/2.2.10.0 2018-12-01 1
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3121 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_precursormasscorrector/PrecursorMassCorrector/2.3.0 2018-12-01 1
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3123 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_bedtoigv/2.27.0.0 2018-12-01 1
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3125 toolshed.g2.bx.psu.edu/repos/iuc/gemini_annotate/gemini_annotate/0.18.1.1 2018-12-01 1
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3126 toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_combine/cardinal_combine/1.12.1.0 2018-12-01 1
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3127 toolshed.g2.bx.psu.edu/repos/peterjc/tmhmm_and_signalp/promoter2/0.0.12 2018-12-01 1
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3128 toolshed.g2.bx.psu.edu/repos/iuc/data_manager_gemini_database_downloader/data_manager_gemini_download/0.18.1 2018-12-01 1
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3129 toolshed.g2.bx.psu.edu/repos/bebatut/format_metaphlan2_output/format_metaphlan2_output/0.1.0 2018-12-01 1
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3130 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_peakpickerwavelet/PeakPickerWavelet/2.3.0 2018-12-01 1
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3136 toolshed.g2.bx.psu.edu/repos/iuc/column_order_header_sort/column_order_header_sort/0.0.1 2018-12-01 1
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3142 toolshed.g2.bx.psu.edu/repos/devteam/tabular_to_fastq/tabular_to_fastq/1.0.0 2018-12-01 1
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3144 toolshed.g2.bx.psu.edu/repos/iuc/gemini_mendel_errors/gemini_mendel_errors/0.18.1.1 2018-12-01 1
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3149 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_plot_fingerprint/deeptools_plot_fingerprint/2.5.7.0 2018-12-01 1
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3150 toolshed.g2.bx.psu.edu/repos/iuc/gemini_query/gemini_query/0.18.1.1 2018-12-01 1
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3151 toolshed.g2.bx.psu.edu/repos/jjohnson/translate_bed_sequences/translate_bed_sequences/0.0.1 2018-12-01 1
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3153 toolshed.g2.bx.psu.edu/repos/rnateam/chipseeker/chipseeker/1.14.2 2018-12-01 1
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3154 toolshed.g2.bx.psu.edu/repos/bgruening/split_file_on_column/tp_split_on_column/0.2 2018-12-01 1
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3155 toolshed.g2.bx.psu.edu/repos/devteam/fastx_collapser/cshl_fastx_collapser/1.0.1 2018-12-01 1
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3158 toolshed.g2.bx.psu.edu/repos/rnateam/viennarna_rnaalifold/viennarna_rnaalifold/2.2.10.1 2018-12-01 1
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3159 toolshed.g2.bx.psu.edu/repos/peterjc/blastxml_to_top_descr/blastxml_to_top_descr/0.1.1 2018-12-01 1
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3160 toolshed.g2.bx.psu.edu/repos/rnateam/structure_to_gspan/structure_to_gspan/0.4 2018-12-01 1
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3161 toolshed.g2.bx.psu.edu/repos/iuc/macs2/macs2_refinepeak/2.1.1.20160309.0 2018-12-01 1
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3162 toolshed.g2.bx.psu.edu/repos/iuc/plasflow/PlasFlow/1.0 2018-12-01 1
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3163 toolshed.g2.bx.psu.edu/repos/iuc/gffcompare/gffcompare/0.9.8 2018-12-01 1
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3164 toolshed.g2.bx.psu.edu/repos/devteam/scatterplot/scatterplot_rpy/1.0.3 2018-12-01 1
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3165 toolshed.g2.bx.psu.edu/repos/bgruening/sklearn_nn_classifier/sklearn_nn_classifier/0.9 2018-12-01 1
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3166 toolshed.g2.bx.psu.edu/repos/peterjc/blast2go/blast2go/0.0.9 2018-12-01 1
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3167 toolshed.g2.bx.psu.edu/repos/iuc/poretools_extract/poretools_extract/0.6.1a1.0 2018-12-01 1
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3168 toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_sort_header_tool/1.0.0 2018-12-01 1
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3169 toolshed.g2.bx.psu.edu/repos/devteam/cuffdiff/cuffdiff/2.2.1.3 2018-12-01 1
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3170 toolshed.g2.bx.psu.edu/repos/iuc/snpsift/snpSift_int/4.3+t.galaxy0 2018-12-01 1
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3171 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_simplesearchengine/SimpleSearchEngine/2.3.0 2018-12-01 1
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3172 toolshed.g2.bx.psu.edu/repos/bgruening/salmon/salmon/0.9.1 2018-12-01 1
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3173 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_clusterbed/2.27.0.0 2018-12-01 1
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3174 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_demeanderize/DeMeanderize/2.3.0 2018-12-01 1
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3175 toolshed.g2.bx.psu.edu/repos/galaxyp/msi_filtering/mass_spectrometry_imaging_filtering/1.7.0.1 2018-12-01 1
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3176 toolshed.g2.bx.psu.edu/repos/iuc/poretools_yield_plot/poretools_yield_plot/0.6.1a1.0 2018-12-01 1
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3177 toolshed.g2.bx.psu.edu/repos/devteam/bam_to_sam/bam_to_sam/2.0 2018-12-01 1
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3178 toolshed.g2.bx.psu.edu/repos/nml/spades/spades/3.11.1+galaxy1 2018-12-01 1
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3179 toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fastq_dump/1.3.0 2018-12-01 1
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3180 toolshed.g2.bx.psu.edu/repos/devteam/fastx_reverse_complement/cshl_fastx_reverse_complement/1.0.2 2018-12-01 1
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3181 toolshed.g2.bx.psu.edu/repos/devteam/t_test_two_samples/t_test_two_samples/1.0.1 2018-12-01 1
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3182 toolshed.g2.bx.psu.edu/repos/iuc/deseq2/deseq2/2.1.8.3 2018-12-01 1
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3183 toolshed.g2.bx.psu.edu/repos/iuc/trinity/trinity/2.4.0.2 2018-12-01 1
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3184 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_complementbed/2.27.0.0 2018-12-01 1
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3185 toolshed.g2.bx.psu.edu/repos/lparsons/fastq_join/fastq_join/1.1.2-806 2018-12-01 1
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3187 __EXTRACT_DATASET__ 2018-12-01 1
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3188 toolshed.g2.bx.psu.edu/repos/galaxyp/quantp/quantp/1.0.0 2018-12-01 1
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3189 toolshed.g2.bx.psu.edu/repos/iuc/dexseq/dexseq/1.26.0.0 2018-12-01 1
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3192 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_ticcalculator/TICCalculator/2.3.0 2018-12-01 1
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3194 toolshed.g2.bx.psu.edu/repos/iuc/khmer_partition/khmer_partition/2.0.0 2018-12-01 1
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3196 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_masstraceextractor/MassTraceExtractor/2.2.0 2018-12-01 1
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3199 toolshed.g2.bx.psu.edu/repos/rnateam/rnashapes/RNAshapes/3.3.0 2018-12-01 1
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3202 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_CollectGcBiasMetrics/2.18.2.1 2018-12-01 1
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3203 toolshed.g2.bx.psu.edu/repos/iuc/qiime_filter_samples_from_otu_table/qiime_filter_samples_from_otu_table/1.9.1.0 2018-12-01 1
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3204 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_mapstatistics/MapStatistics/2.3.0 2018-12-01 1
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3207 toolshed.g2.bx.psu.edu/repos/rnateam/rcas/rcas/1.1.1 2018-12-01 1
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3208 toolshed.g2.bx.psu.edu/repos/iuc/disco/disco/1.2.0 2018-12-01 1
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3209 toolshed.g2.bx.psu.edu/repos/iuc/trinity_gene_to_trans_map/trinity_gene_to_trans_map/2.8.4 2018-12-01 1
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3212 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_subtractbed/2.27.1 2018-12-01 1
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3213 toolshed.g2.bx.psu.edu/repos/iuc/qiime_make_phylogeny/qiime_make_phylogeny/1.9.1.0 2018-12-01 1
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3215 toolshed.g2.bx.psu.edu/repos/devteam/freebayes_wrapper/freebayes_wrapper/0.5.0 2018-12-01 1
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3216 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_inspectadapter/InspectAdapter/2.3.0 2018-12-01 1
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3222 toolshed.g2.bx.psu.edu/repos/bgruening/nn_classifier/nn_classifier/0.9 2018-12-01 1
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3225 toolshed.g2.bx.psu.edu/repos/iuc/bctools_extract_barcodes/bctools_extract_barcodes/0.2.2 2018-12-01 1
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3226 toolshed.g2.bx.psu.edu/repos/iuc/bandage/bandage_image/0.8.1+galaxy0 2018-12-01 1
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3230 toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_quality_report/cardinal_quality_report/1.12.1.0 2018-12-01 1
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3231 toolshed.g2.bx.psu.edu/repos/rnateam/peakachu/peakachu/0.1.0.0 2018-12-01 1
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3232 toolshed.g2.bx.psu.edu/repos/devteam/megablast_xml_parser/megablast_xml_parser/1.0.0 2018-12-01 1
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3235 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_nucbed/2.27.0.1 2018-12-01 1
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3237 toolshed.g2.bx.psu.edu/repos/iuc/bandage/bandage_info/0.8.1+galaxy0 2018-12-01 1
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3241 toolshed.g2.bx.psu.edu/repos/devteam/dna_filtering/histogram_rpy/1.0.3 2018-12-01 1
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3242 toolshed.g2.bx.psu.edu/repos/iuc/bcftools_norm/bcftools_norm/1.4.0.0 2018-12-01 1
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3243 toolshed.g2.bx.psu.edu/repos/galaxyp/msi_classification/mass_spectrometry_imaging_classification/1.10.0.0 2018-12-01 1
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3245 toolshed.g2.bx.psu.edu/repos/iuc/mummer_delta_filter/mummer_delta_filter/4.0.0beta2 2018-12-01 1
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3247 toolshed.g2.bx.psu.edu/repos/peterjc/tmhmm_and_signalp/signalp3/0.0.19 2018-12-01 1
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3249 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_compute_gc_bias/deeptools_compute_gc_bias/2.5.7.0 2018-12-01 1
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3253 toolshed.g2.bx.psu.edu/repos/iuc/gemini_dump/gemini_dump/0.18.1.1 2018-12-01 1
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3254 toolshed.g2.bx.psu.edu/repos/iuc/ncbi_eutils_efetch/ncbi_eutils_efetch/1.1 2018-12-01 1
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3474 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_getfastabed/2.27.0.1 2018-11-01 49
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3479 toolshed.g2.bx.psu.edu/repos/iuc/humann2/humann2/0.11.1.0 2018-11-01 47
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3480 toolshed.g2.bx.psu.edu/repos/bgruening/graphicsmagick_image_convert/graphicsmagick_image_convert/1.3.26 2018-11-01 47
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3481 toolshed.g2.bx.psu.edu/repos/devteam/dna_filtering/histogram_rpy/1.0.3 2018-11-01 47
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3485 toolshed.g2.bx.psu.edu/repos/rnateam/metilene/metilene/0.2.6.1 2018-11-01 46
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3487 toolshed.g2.bx.psu.edu/repos/iuc/mothur_summary_seqs/mothur_summary_seqs/1.39.5.0 2018-11-01 44
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3489 toolshed.g2.bx.psu.edu/repos/iuc/deseq2/deseq2/2.11.39 2018-11-01 44
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3490 toolshed.g2.bx.psu.edu/repos/devteam/samtools_mpileup/samtools_mpileup/2.1.3 2018-11-01 44
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3491 toolshed.g2.bx.psu.edu/repos/iuc/annotatemyids/annotatemyids/3.5.0.1 2018-11-01 44
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3492 toolshed.g2.bx.psu.edu/repos/iuc/stringtie/stringtie_merge/1.3.4 2018-11-01 43
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3493 toolshed.g2.bx.psu.edu/repos/devteam/samtool_filter2/samtool_filter2/1.8 2018-11-01 43
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3494 toolshed.g2.bx.psu.edu/repos/devteam/add_value/addValue/1.0.0 2018-11-01 43
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3495 toolshed.g2.bx.psu.edu/repos/wolma/mimodd_main/mimodd_vcf_filter/0.1.8_1 2018-11-01 43
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3497 toolshed.g2.bx.psu.edu/repos/iuc/mothur_unique_seqs/mothur_unique_seqs/1.36.1.0 2018-11-01 43
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3498 toolshed.g2.bx.psu.edu/repos/iuc/raceid_inspectclusters/raceid_inspectclusters/3.0.2.1 2018-11-01 42
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3501 toolshed.g2.bx.psu.edu/repos/galaxyp/peptideshaker/peptide_shaker/1.16.26 2018-11-01 41
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3505 toolshed.g2.bx.psu.edu/repos/iuc/ggplot2_heatmap2/ggplot2_heatmap2/2.2.1 2018-11-01 40
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3508 toolshed.g2.bx.psu.edu/repos/devteam/samtools_idxstats/samtools_idxstats/2.0.1 2018-11-01 40
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3510 toolshed.g2.bx.psu.edu/repos/iuc/mothur_pre_cluster/mothur_pre_cluster/1.36.1.0 2018-11-01 39
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3511 toolshed.g2.bx.psu.edu/repos/iuc/mothur_count_seqs/mothur_count_seqs/1.36.1.0 2018-11-01 39
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3512 toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_filtering/cardinal_filtering/1.12.1.1 2018-11-01 39
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3515 toolshed.g2.bx.psu.edu/repos/iuc/mothur_filter_seqs/mothur_filter_seqs/1.36.1.0 2018-11-01 39
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3526 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_genomecoveragebed/2.27.0.0 2018-11-01 39
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3530 toolshed.g2.bx.psu.edu/repos/iuc/extract_genomic_dna/Extract genomic DNA 1/3.0.3 2018-11-01 38
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3531 toolshed.g2.bx.psu.edu/repos/bgruening/sklearn_feature_selection/sklearn_feature_selection/0.9.1 2018-11-01 38
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3532 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastp_wrapper/0.3.1 2018-11-01 38
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3628 toolshed.g2.bx.psu.edu/repos/iuc/sqlite_to_tabular/sqlite_to_tabular/2.0.0 2018-11-01 22
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3631 toolshed.g2.bx.psu.edu/repos/devteam/samtools_mpileup/samtools_mpileup/2.1.4 2018-11-01 22
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3635 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_SortSam/2.18.2.1 2018-11-01 21
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3681 toolshed.g2.bx.psu.edu/repos/peterjc/blast2go/blast2go/0.0.9 2018-11-01 16
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3687 toolshed.g2.bx.psu.edu/repos/pjbriggs/trimmomatic/trimmomatic/0.36.4 2018-11-01 16
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3690 toolshed.g2.bx.psu.edu/repos/peterjc/mira_assembler/mira_assembler/0.0.11 2018-11-01 15
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3692 toolshed.g2.bx.psu.edu/repos/iuc/raceid_filtnormconf/raceid_filtnormconf/3.0.2.1 2018-11-01 15
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3733 toolshed.g2.bx.psu.edu/repos/iuc/mothur_cluster_split/mothur_cluster_split/1.39.5.0 2018-11-01 12
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3735 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_decoydatabase/DecoyDatabase/2.3.0 2018-11-01 12
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3737 toolshed.g2.bx.psu.edu/repos/iuc/raceid_trajectory/raceid_trajectory/3.0.2.1 2018-11-01 12
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3739 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_FastqToSam/2.18.2.1 2018-11-01 12
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3740 toolshed.g2.bx.psu.edu/repos/iuc/column_remove_by_header/column_remove_by_header/0.0.1 2018-11-01 12
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3741 toolshed.g2.bx.psu.edu/repos/iuc/rgrnastar/rna_star/2.5.2b-2 2018-11-01 12
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3743 toolshed.g2.bx.psu.edu/repos/bgruening/split_file_on_column/tp_split_on_column/0.2 2018-11-01 12
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3745 toolshed.g2.bx.psu.edu/repos/bgruening/plotly_ml_performance_plots/plotly_ml_performance_plots/0.1 2018-11-01 12
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3748 toolshed.g2.bx.psu.edu/repos/iuc/collection_column_join/collection_column_join/0.0.2 2018-11-01 11
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3749 toolshed.g2.bx.psu.edu/repos/iuc/qiime_assign_taxonomy/qiime_assign_taxonomy/1.9.1.0 2018-11-01 11
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3752 toolshed.g2.bx.psu.edu/repos/iuc/trinity_run_de_analysis/trinity_run_de_analysis/2.8.4 2018-11-01 11
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3753 toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/2.8.0 2018-11-01 11
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3754 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_FPKM_count/2.6.4.1 2018-11-01 11
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3755 toolshed.g2.bx.psu.edu/repos/iuc/column_order_header_sort/column_order_header_sort/0.0.1 2018-11-01 11
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3759 toolshed.g2.bx.psu.edu/repos/peterjc/blast_rbh/blast_reciprocal_best_hits/0.1.11 2018-11-01 10
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3764 toolshed.g2.bx.psu.edu/repos/devteam/fastqtofasta/fastq_to_fasta_python/1.1.1 2018-11-01 10
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3765 toolshed.g2.bx.psu.edu/repos/iuc/fasta_stats/fasta-stats/1.0.1 2018-11-01 10
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3781 toolshed.g2.bx.psu.edu/repos/peterjc/seq_filter_by_id/seq_filter_by_id/0.2.7 2018-11-01 10
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3784 toolshed.g2.bx.psu.edu/repos/iuc/extract_genomic_dna/Extract genomic DNA 1/3.0.2 2018-11-01 9
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3785 toolshed.g2.bx.psu.edu/repos/bebatut/group_humann2_uniref_abundances_to_go/group_humann2_uniref_abundances_to_go/1.2.0 2018-11-01 9
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3786 toolshed.g2.bx.psu.edu/repos/iuc/seqtk/seqtk_mergefa/1.3.0 2018-11-01 9
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3787 toolshed.g2.bx.psu.edu/repos/iuc/picrust_categorize/picrust_categorize/1.1.1.0 2018-11-01 9
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3788 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_DownsampleSam/2.18.2.1 2018-11-01 9
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3790 toolshed.g2.bx.psu.edu/repos/jjohnson/rsem/rsem_calculate_expression/1.1.17 2018-11-01 9
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3815 toolshed.g2.bx.psu.edu/repos/devteam/gi2taxonomy/Fetch Taxonomic Ranks/1.1.0 2018-11-01 8
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3817 toolshed.g2.bx.psu.edu/repos/peterjc/sample_seqs/sample_seqs/0.2.5 2018-11-01 8
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3819 toolshed.g2.bx.psu.edu/repos/devteam/picard/PicardASMetrics/1.56.0 2018-11-01 8
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3838 toolshed.g2.bx.psu.edu/repos/galaxyp/peptideshaker/search_gui/3.2.13 2018-11-01 8
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3844 toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/sra_pileup/2.9.1.2 2018-11-01 7
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3846 toolshed.g2.bx.psu.edu/repos/devteam/xy_plot/XY_Plot_1/1.0.2 2018-11-01 7
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3851 toolshed.g2.bx.psu.edu/repos/devteam/fastq_manipulation/fastq_manipulation/1.1.1 2018-11-01 7
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3853 toolshed.g2.bx.psu.edu/repos/bgruening/graphmap_align/graphmap_align/0.5.2 2018-11-01 7
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3854 toolshed.g2.bx.psu.edu/repos/iuc/mothur_count_groups/mothur_count_groups/1.36.1.0 2018-11-01 7
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3856 toolshed.g2.bx.psu.edu/repos/iuc/ncbi_eutils_esearch/ncbi_eutils_esearch/1.1 2018-11-01 7
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3857 toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_variant_select/2.8.0 2018-11-01 7
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3859 toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpEff_download/4.3r.1 2018-11-01 7
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3860 toolshed.g2.bx.psu.edu/repos/iuc/migmap/migmap/1.0.2.2 2018-11-01 7
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3862 toolshed.g2.bx.psu.edu/repos/iuc/mageck_count/mageck_count/0.5.7.4 2018-11-01 6
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3863 toolshed.g2.bx.psu.edu/repos/lparsons/htseq_count/htseq_count/0.6.1galaxy3 2018-11-01 6
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3865 toolshed.g2.bx.psu.edu/repos/iuc/mothur_remove_lineage/mothur_remove_lineage/1.39.5.0 2018-11-01 6
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3866 toolshed.g2.bx.psu.edu/repos/iuc/trinity_analyze_diff_expr/trinity_analyze_diff_expr/2.8.4 2018-11-01 6
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3868 toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hicplotdistvscounts/hicexplorer_hicplotdistvscounts/2.1.4.0 2018-11-01 6
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3869 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_read_distribution/2.6.4.1 2018-11-01 6
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3870 toolshed.g2.bx.psu.edu/repos/iuc/trinity_super_transcripts/trinity_super_transcripts/2.8.4 2018-11-01 6
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3871 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_consensusid/ConsensusID/2.3.0 2018-11-01 6
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3872 toolshed.g2.bx.psu.edu/repos/devteam/cummerbund_to_tabular/cummerbund_to_cuffdiff/1.0.1 2018-11-01 6
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3873 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_closestbed/2.27.0.0 2018-11-01 6
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3875 toolshed.g2.bx.psu.edu/repos/devteam/data_manager_build_kraken_database/kraken_database_builder/1.1 2018-11-01 6
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3876 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_tblastx_wrapper/0.3.1 2018-11-01 6
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3877 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_NormalizeFasta/2.18.2.1 2018-11-01 6
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3878 toolshed.g2.bx.psu.edu/repos/devteam/vcfselectsamples/vcfselectsamples/1.0.0_rc1+galaxy0 2018-11-01 6
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3879 toolshed.g2.bx.psu.edu/repos/iuc/snpsift/snpSift_filter/4.3+t.galaxy0 2018-11-01 6
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3880 toolshed.g2.bx.psu.edu/repos/peterjc/tmhmm_and_signalp/rxlr_motifs/0.0.14 2018-11-01 6
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3881 toolshed.g2.bx.psu.edu/repos/devteam/emboss_5/EMBOSS: palindrome65/5.0.0.1 2018-11-01 6
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3882 toolshed.g2.bx.psu.edu/repos/iuc/rgrnastar/rna_star/2.5.2b-0 2018-11-01 6
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3884 toolshed.g2.bx.psu.edu/repos/rnateam/mafft/rbc_mafft/7.221.3 2018-11-01 6
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3885 toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hictransform/hicexplorer_hictransform/2.1.4.0 2018-11-01 6
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3886 toolshed.g2.bx.psu.edu/repos/jjohnson/samtools_filter/samtools_filter/1.1.1 2018-11-01 6
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3887 toolshed.g2.bx.psu.edu/repos/devteam/fastx_nucleotides_distribution/cshl_fastx_nucleotides_distribution/1.0.1 2018-11-01 6
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3888 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_plot_heatmap/deeptools_plot_heatmap/2.5.7.0 2018-11-01 6
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3889 toolshed.g2.bx.psu.edu/repos/galaxyp/peptideshaker/peptide_shaker/1.16.4 2018-11-01 6
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3891 toolshed.g2.bx.psu.edu/repos/iuc/trinity_gene_to_trans_map/trinity_gene_to_trans_map/2.8.4 2018-11-01 6
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3892 toolshed.g2.bx.psu.edu/repos/iuc/meme_dreme/meme_dreme/4.11.2.0 2018-11-01 6
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3894 toolshed.g2.bx.psu.edu/repos/iuc/query_tabular/query_tabular/3.0.0 2018-11-01 5
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3895 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_proteinquantifier/ProteinQuantifier/2.3.0 2018-11-01 5
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3897 toolshed.g2.bx.psu.edu/repos/iuc/describe_samples/describe_samples/2.8.4 2018-11-01 5
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3898 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_bamtofastq/2.27.0.0 2018-11-01 5
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3899 toolshed.g2.bx.psu.edu/repos/devteam/fastq_combiner/fastq_combiner/1.1.1 2018-11-01 5
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3901 toolshed.g2.bx.psu.edu/repos/blankenberg/naive_variant_caller/naive_variant_caller/0.0.3 2018-11-01 5
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3902 toolshed.g2.bx.psu.edu/repos/iuc/mothur_dist_shared/mothur_dist_shared/1.39.5.0 2018-11-01 5
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3903 toolshed.g2.bx.psu.edu/repos/eschen42/w4mclassfilter/w4mclassfilter/0.98.10 2018-11-01 5
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3904 toolshed.g2.bx.psu.edu/repos/iuc/ggplot2_pca/ggplot2_pca/2.2.1 2018-11-01 5
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3905 toolshed.g2.bx.psu.edu/repos/iuc/bp_genbank2gff3/bp_genbank2gff3/1.0 2018-11-01 5
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3906 toolshed.g2.bx.psu.edu/repos/iuc/trinity_samples_qccheck/trinity_samples_qccheck/2.8.4 2018-11-01 5
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3909 toolshed.g2.bx.psu.edu/repos/devteam/vcfcombine/vcfcombine/1.0.0_rc1+galaxy0 2018-11-01 5
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3910 toolshed.g2.bx.psu.edu/repos/devteam/cuffnorm/cuffnorm/2.2.1.2 2018-11-01 5
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3911 toolshed.g2.bx.psu.edu/repos/devteam/fastq_quality_boxplot/cshl_fastq_quality_boxplot/1.0.0 2018-11-01 5
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3912 toolshed.g2.bx.psu.edu/repos/iuc/ruvseq/ruvseq/1.12.0 2018-11-01 5
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3913 toolshed.g2.bx.psu.edu/repos/bgruening/nucleosome_prediction/Nucleosome/3.0 2018-11-01 5
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3914 toolshed.g2.bx.psu.edu/repos/devteam/samtools_bedcov/samtools_bedcov/2.0.1 2018-11-01 5
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3915 toolshed.g2.bx.psu.edu/repos/iuc/stacks_denovomap/stacks_denovomap/1.46.0 2018-11-01 5
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3916 toolshed.g2.bx.psu.edu/repos/iuc/qiime_pick_open_reference_otus/qiime_pick_open_reference_otus/1.9.1.0 2018-11-01 5
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3917 toolshed.g2.bx.psu.edu/repos/galaxyp/uniprotxml_downloader/uniprotxml_downloader/2.0.0 2018-11-01 5
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3918 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/blastxml_to_tabular/0.3.1 2018-11-01 5
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3919 toolshed.g2.bx.psu.edu/repos/iuc/qiime_pick_otus/qiime_pick_otus/1.9.1.0 2018-11-01 5
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3921 toolshed.g2.bx.psu.edu/repos/crs4/muscle/muscle/0.0.11 2018-11-01 5
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3922 toolshed.g2.bx.psu.edu/repos/gbcs-embl-heidelberg/je_markdupes/je_markdupes/1.2.1 2018-11-01 5
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3923 toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpEff/4.0.0 2018-11-01 5
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3925 toolshed.g2.bx.psu.edu/repos/iuc/mothur_metastats/mothur_metastats/1.36.1.0 2018-11-01 4
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3926 toolshed.g2.bx.psu.edu/repos/iuc/enasearch_search_data/enasearch_search_data/0.1.1.0 2018-11-01 4
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3927 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/1.136.0 2018-11-01 4
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3928 toolshed.g2.bx.psu.edu/repos/iuc/mothur_make_contigs/mothur_make_contigs/1.36.1.0 2018-11-01 4
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3930 toolshed.g2.bx.psu.edu/repos/iuc/mothur_remove_groups/mothur_remove_groups/1.36.1.0 2018-11-01 4
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3932 toolshed.g2.bx.psu.edu/repos/iuc/mothur_remove_lineage/mothur_remove_lineage/1.36.1.0 2018-11-01 4
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3933 toolshed.g2.bx.psu.edu/repos/iuc/mothur_get_groups/mothur_get_groups/1.39.5.0 2018-11-01 4
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3934 toolshed.g2.bx.psu.edu/repos/iuc/mothur_get_groups/mothur_get_groups/1.36.1.0 2018-11-01 4
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3935 toolshed.g2.bx.psu.edu/repos/iuc/mothur_seq_error/mothur_seq_error/1.36.1.0 2018-11-01 4
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3939 toolshed.g2.bx.psu.edu/repos/iuc/mothur_dist_shared/mothur_dist_shared/1.36.1.0 2018-11-01 4
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3942 toolshed.g2.bx.psu.edu/repos/bgruening/sklearn_generalized_linear/sklearn_generalized_linear/0.9 2018-11-01 4
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3944 toolshed.g2.bx.psu.edu/repos/iuc/mothur_count_groups/mothur_count_groups/1.39.5.0 2018-11-01 4
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3945 toolshed.g2.bx.psu.edu/repos/iuc/umi_tools_whitelist/umi_tools_whitelist/0.5.3.1 2018-11-01 4
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3946 toolshed.g2.bx.psu.edu/repos/iuc/mothur_cluster/mothur_cluster/1.39.5.0 2018-11-01 4
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3950 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_SamToFastq/2.18.2.1 2018-11-01 4
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3951 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_tblastn_wrapper/0.3.1 2018-11-01 4
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3953 toolshed.g2.bx.psu.edu/repos/devteam/fastx_quality_statistics/cshl_fastx_quality_statistics/1.0.1 2018-11-01 4
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3957 toolshed.g2.bx.psu.edu/repos/peterjc/tmhmm_and_signalp/wolf_psort/0.0.11 2018-11-01 4
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3958 toolshed.g2.bx.psu.edu/repos/anton/vcfvcfintersect/vcfvcfintersect/0.0.1 2018-11-01 4
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3979 toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_quality_report/cardinal_quality_report/1.12.1.0 2018-11-01 3
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3980 toolshed.g2.bx.psu.edu/repos/iuc/mothur_lefse/mothur_lefse/1.36.1.0 2018-11-01 3
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3981 toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_haplotype_caller/2.8.0 2018-11-01 3
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3982 toolshed.g2.bx.psu.edu/repos/iuc/macs2/macs2_predictd/2.1.1.20160309.0 2018-11-01 3
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3983 toolshed.g2.bx.psu.edu/repos/devteam/vcfannotate/vcfannotate/1.0.0_rc1+galaxy0 2018-11-01 3
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3984 toolshed.g2.bx.psu.edu/repos/iuc/ncbi_eutils_elink/ncbi_eutils_elink/1.1 2018-11-01 3
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3987 toolshed.g2.bx.psu.edu/repos/devteam/fastx_collapser/cshl_fastx_collapser/1.0.1 2018-11-01 3
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3988 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_junction_saturation/2.6.4.1 2018-11-01 3
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3992 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_ReorderSam/2.18.2.1 2018-11-01 3
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3994 toolshed.g2.bx.psu.edu/repos/jjohnson/sqlite_to_tabular/sqlite_to_tabular/0.0.1 2018-11-01 3
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3996 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastx_wrapper/0.1.00 2018-11-01 3
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4000 toolshed.g2.bx.psu.edu/repos/peterjc/blastxml_to_top_descr/blastxml_to_top_descr/0.1.1 2018-11-01 3
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4002 toolshed.g2.bx.psu.edu/repos/devteam/samtools_flagstat/samtools_flagstat/2.0 2018-11-01 3
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4003 toolshed.g2.bx.psu.edu/repos/peterjc/tmhmm_and_signalp/promoter2/0.0.12 2018-11-01 3
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4004 toolshed.g2.bx.psu.edu/repos/iuc/mothur_get_communitytype/mothur_get_communitytype/1.36.1.0 2018-11-01 3
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4005 __DATA_FETCH__ 2018-11-01 3
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4006 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_shufflebed/2.27.0.0 2018-11-01 3
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4007 toolshed.g2.bx.psu.edu/repos/iuc/qiime_alpha_diversity/qiime_alpha_diversity/1.9.1.0 2018-11-01 3
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4009 toolshed.g2.bx.psu.edu/repos/iuc/mothur_classify_rf/mothur_classify_rf/1.36.1.0 2018-11-01 3
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4010 toolshed.g2.bx.psu.edu/repos/devteam/fastx_quality_statistics/cshl_fastx_quality_statistics/1.0.0 2018-11-01 3
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4011 bed_to_bigBed 2018-11-01 3
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4012 mosaik_wrapper 2018-11-01 3
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4013 __UNZIP_COLLECTION__ 2018-11-01 3
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4014 coords2clnt.py 2018-11-01 3
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4015 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_slopbed/2.27.0.0 2018-11-01 3
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4016 CONVERTER_sam_to_unsorted_bam 2018-11-01 3
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4017 merge_pcr_duplicates.py 2018-11-01 3
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4018 toolshed.g2.bx.psu.edu/repos/galaxyp/msi_combine/mass_spectrometry_imaging_combine/1.10.0.5 2018-11-01 3
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4019 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_clusterbed/2.27.0.0 2018-11-01 3
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4021 toolshed.g2.bx.psu.edu/repos/lparsons/fastq_join/fastq_join/1.1.2-806.1 2018-11-01 3
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4022 toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.2.0 2018-11-01 3
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4023 toolshed.g2.bx.psu.edu/repos/bgruening/nanopolish_variants/nanopolish_variants/0.1.0 2018-11-01 3
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4024 toolshed.g2.bx.psu.edu/repos/bgruening/diamond/bg_diamond/0.8.24.1 2018-11-01 3
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4025 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_compute_matrix/deeptools_compute_matrix/2.5.7.0 2018-11-01 3
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4026 toolshed.g2.bx.psu.edu/repos/bgruening/column_arrange_by_header/bg_column_arrange_by_header/0.1 2018-11-01 3
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4027 toolshed.g2.bx.psu.edu/repos/nml/spades/spades/3.11.1 2018-11-01 3
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4028 toolshed.g2.bx.psu.edu/repos/peterjc/tmhmm_and_signalp/Psortb/0.0.9 2018-11-01 3
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4029 toolshed.g2.bx.psu.edu/repos/jjohnson/cdhit/cd_hit_est/1.2 2018-11-01 3
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4031 toolshed.g2.bx.psu.edu/repos/devteam/bam_to_sam/bam_to_sam/2.0 2018-11-01 3
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4032 toolshed.g2.bx.psu.edu/repos/devteam/lastz/lastz_d_wrapper/1.3.2 2018-11-01 3
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4033 Interval2Maf1 2018-11-01 3
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4034 toolshed.g2.bx.psu.edu/repos/iuc/bandage/bandage_info/0.8.1+galaxy0 2018-11-01 2
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4035 toolshed.g2.bx.psu.edu/repos/earlhaminst/ensembl_get_sequences/get_sequences/0.1.2 2018-11-01 2
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4036 toolshed.g2.bx.psu.edu/repos/bgruening/svm_classifier/svm_classifier/0.9 2018-11-01 2
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4037 toolshed.g2.bx.psu.edu/repos/iuc/kraken_taxonomy_report/kraken_taxonomy_report/0.0.2 2018-11-01 2
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4038 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bam_coverage/deeptools_bam_coverage/2.5.7.0 2018-11-01 2
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4039 toolshed.g2.bx.psu.edu/repos/iuc/ggplot2_point/ggplot2_point/2.2.1+galaxy0 2018-11-01 2
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4040 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastx_wrapper/0.3.0 2018-11-01 2
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4041 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastp_wrapper/0.0.20 2018-11-01 2
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4042 toolshed.g2.bx.psu.edu/repos/devteam/count_covariates/gatk_count_covariates/0.0.5 2018-11-01 2
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4043 genbank_to_gff 2018-11-01 2
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4044 toolshed.g2.bx.psu.edu/repos/rnateam/rnashapes/RNAshapes/3.3.0 2018-11-01 2
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4045 gbk_to_orf 2018-11-01 2
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4046 toolshed.g2.bx.psu.edu/repos/devteam/fastx_reverse_complement/cshl_fastx_reverse_complement/1.0.2 2018-11-01 2
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4047 toolshed.g2.bx.psu.edu/repos/devteam/emboss_5/EMBOSS: backtranseq2/5.0.0 2018-11-01 2
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4048 toolshed.g2.bx.psu.edu/repos/devteam/kraken_translate/kraken-translate/1.2.3 2018-11-01 2
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4049 toolshed.g2.bx.psu.edu/repos/ethevenot/qualitymetrics/quality_metrics/2.2.8 2018-11-01 2
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4051 toolshed.g2.bx.psu.edu/repos/devteam/scatterplot/scatterplot_rpy/1.0.3 2018-11-01 2
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4053 toolshed.g2.bx.psu.edu/repos/galaxyp/reactome_pathwaymatcher/reactome_pathwaymatcher/1.8.1.2 2018-11-01 2
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4055 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_featurefindermultiplex/FeatureFinderMultiplex/2.3.0 2018-11-01 2
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4061 toolshed.g2.bx.psu.edu/repos/lecorguille/camera_annotate/abims_CAMERA_annotateDiffreport/2.2.2 2018-11-01 2
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4064 toolshed.g2.bx.psu.edu/repos/galaxyp/msi_preprocessing/mass_spectrometry_imaging_preprocessing/1.10.0.7 2018-11-01 2
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4065 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastx_wrapper/0.1.08 2018-11-01 2
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4071 toolshed.g2.bx.psu.edu/repos/iuc/ncbi_eutils_einfo/ncbi_eutils_einfo/1.1 2018-11-01 2
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4072 toolshed.g2.bx.psu.edu/repos/devteam/fastq_stats/fastq_stats/1.1.1 2018-11-01 2
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4074 toolshed.g2.bx.psu.edu/repos/devteam/t2t_report/t2t_report/1.0.0 2018-11-01 2
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4077 toolshed.g2.bx.psu.edu/repos/iuc/intervene/intervene_pairwise/0.6.4 2018-11-01 2
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4081 toolshed.g2.bx.psu.edu/repos/miller-lab/genome_diversity/gd_raxml/1.0.0 2018-11-01 2
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4082 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_fuzzydiff/FuzzyDiff/2.3.0 2018-11-01 2
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4084 toolshed.g2.bx.psu.edu/repos/bebatut/format_cd_hit_output/format_cd_hit_output/1.0.0 2018-11-01 2
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4088 toolshed.g2.bx.psu.edu/repos/bgruening/natural_product_likeness/ctb_np-likeness-calculator/2.1 2018-11-01 2
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4094 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_geneBody_coverage2/2.6.4.1 2018-11-01 2
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4108 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_rpsblast_wrapper/0.3.1 2018-11-01 1
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4114 toolshed.g2.bx.psu.edu/repos/iuc/migmap/migmap/1.0.2.1 2018-11-01 1
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4115 toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.3.1 2018-11-01 1
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4116 toolshed.g2.bx.psu.edu/repos/devteam/t2ps/Draw_phylogram/1.0.0 2018-11-01 1
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4117 toolshed.g2.bx.psu.edu/repos/bgruening/hicup_mapper/hicup_mapper/0.5.10.0 2018-11-01 1
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4118 toolshed.g2.bx.psu.edu/repos/ethevenot/heatmap/Heatmap/2.2.2 2018-11-01 1
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4119 toolshed.g2.bx.psu.edu/repos/iuc/gemini/gemini_load/0.10.1.0 2018-11-01 1
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4120 toolshed.g2.bx.psu.edu/repos/devteam/vcftools_isec/vcftools_isec/0.1.1 2018-11-01 1
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4121 toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpEff/4.3r.0 2018-11-01 1
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4122 toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_variant_annotator/2.8.0 2018-11-01 1
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4123 toolshed.g2.bx.psu.edu/repos/iuc/meme_psp_gen/meme_psp_gen/4.12.0.0 2018-11-01 1
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4124 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_FixMateInformation/2.18.2.1 2018-11-01 1
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4125 toolshed.g2.bx.psu.edu/repos/bgruening/flye/flye/2.3.5 2018-11-01 1
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4126 toolshed.g2.bx.psu.edu/repos/devteam/vcftools_merge/vcftools_merge/0.1.1 2018-11-01 1
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4127 toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpEff_download/4.3+T.galaxy2 2018-11-01 1
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4128 toolshed.g2.bx.psu.edu/repos/gga/apollo_feat_from_gff3/feat_from_gff3/1.0 2018-11-01 1
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4129 toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpEff_get_chr_names/4.3+T.galaxy1 2018-11-01 1
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4130 toolshed.g2.bx.psu.edu/repos/iuc/deseq2/deseq2/2.11.38 2018-11-01 1
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4131 toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpSift_annotate/3.4 2018-11-01 1
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4132 toolshed.g2.bx.psu.edu/repos/devteam/vcffixup/vcffixup/1.0.0_rc1+galaxy0 2018-11-01 1
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4133 toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_realigner_target_creator/0.0.7 2018-11-01 1
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4134 toolshed.g2.bx.psu.edu/repos/devteam/samtools_phase/samtools_phase/2.0.1 2018-11-01 1
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4135 toolshed.g2.bx.psu.edu/repos/iuc/ococo/ococo/0.1.2.6 2018-11-01 1
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4136 toolshed.g2.bx.psu.edu/repos/devteam/samtools_reheader/samtools_reheader/2.0.1 2018-11-01 1
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4137 toolshed.g2.bx.psu.edu/repos/devteam/count_gff_features/count_gff_features/0.2 2018-11-01 1
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4138 toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/2.8.0 2018-11-01 1
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4139 toolshed.g2.bx.psu.edu/repos/eschen42/w4mjoinpn/w4mjoinpn/0.98.2 2018-11-01 1
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4140 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastx_wrapper/0.2.01 2018-11-01 1
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4141 toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.2.6.2 2018-11-01 1
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4142 toolshed.g2.bx.psu.edu/repos/iuc/ucsc_twobittofa/ucsc-twobittofa/357 2018-11-01 1
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4143 toolshed.g2.bx.psu.edu/repos/rnateam/dorina/dorina_search/1.0.0 2018-11-01 1
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4144 toolshed.g2.bx.psu.edu/repos/iuc/picrust_predict_metagenomes/picrust_predict_metagenomes/1.1.1.0 2018-11-01 1
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4145 toolshed.g2.bx.psu.edu/repos/rnateam/sortmerna/bg_sortmerna/2.1b.5 2018-11-01 1
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4146 toolshed.g2.bx.psu.edu/repos/devteam/tabular_to_fastq/tabular_to_fastq/1.1.1 2018-11-01 1
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4147 toolshed.g2.bx.psu.edu/repos/iuc/mothur_deunique_seqs/mothur_deunique_seqs/1.39.5.0 2018-11-01 1
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4148 toolshed.g2.bx.psu.edu/repos/devteam/weblogo3/rgweblogo3/3.5.0 2018-11-01 1
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4149 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MergeSamFiles/2.7.1.0 2018-11-01 1
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4150 createInterval 2018-11-01 1
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4151 cshl_awk_tool 2018-11-01 1
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4152 toolshed.g2.bx.psu.edu/repos/devteam/kraken_report/kraken-report/1.2.4 2018-11-01 1
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4153 toolshed.g2.bx.psu.edu/repos/galaxyp/decoyfasta/decoyfasta/0.2.0 2018-11-01 1
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4154 __FLATTEN__ 2018-11-01 1
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4155 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastp_wrapper/0.2.01 2018-11-01 1
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4156 toolshed.g2.bx.psu.edu/repos/pavlo-lutsik/rnbeads/rnbeads/0.91 2018-11-01 1
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4157 toolshed.g2.bx.psu.edu/repos/iuc/deseq2/deseq2/2.1.8.0 2018-11-01 1
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4158 toolshed.g2.bx.psu.edu/repos/bgruening/sailfish/sailfish/0.10.1.1 2018-11-01 1
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4159 toolshed.g2.bx.psu.edu/repos/nml/spades/spades/3.11.1+galaxy1 2018-11-01 1
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4160 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastp_wrapper/0.2.00 2018-11-01 1
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4161 toolshed.g2.bx.psu.edu/repos/bgruening/rnaz/rnaz/2.1.1 2018-11-01 1
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4162 toolshed.g2.bx.psu.edu/repos/galaxyp/msi_ion_images/mass_spectrometry_imaging_ion_images/1.10.0.4 2018-11-01 1
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4163 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MeanQualityByCycle/2.18.2.1 2018-11-01 1
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4164 toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hiccorrelate/hicexplorer_hiccorrelate/2.1.4.0 2018-11-01 1
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4165 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_genomecoveragebed_histogram/2.19.0 2018-11-01 1
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4166 Extract genomic DNA 1 2018-11-01 1
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4167 toolshed.g2.bx.psu.edu/repos/galaxyp/msconvert/msconvert_win/3.0.0 2018-11-01 1
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4168 Extract_features1 2018-11-01 1
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4169 toolshed.g2.bx.psu.edu/repos/bgruening/plotly_parallel_coordinates_plot/plotly_parallel_coordinates_plot/0.1 2018-11-01 1
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4170 toolshed.g2.bx.psu.edu/repos/devteam/ucsc_custom_track/build_ucsc_custom_track_1/1.0.0 2018-11-01 1
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4171 toolshed.g2.bx.psu.edu/repos/bgruening/crispr_recognition_tool/crispr_recognition_tool/1.2.0 2018-11-01 1
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4172 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_xmlvalidator/XMLValidator/2.3.0 2018-11-01 1
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4173 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_xtandemadapter/XTandemAdapter/2.2.0.1 2018-11-01 1
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4174 toolshed.g2.bx.psu.edu/repos/iuc/kobas/kobas_annotate/0.4 2018-11-01 1
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4175 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_CollectInsertSizeMetrics/2.18.2.1 2018-11-01 1
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4176 toolshed.g2.bx.psu.edu/repos/iuc/trinity_gene_to_trans_map/trinity_gene_to_trans_map/2.6.6 2018-11-01 1
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4177 toolshed.g2.bx.psu.edu/repos/iuc/disco/disco/1.2.0 2018-11-01 1
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4178 toolshed.g2.bx.psu.edu/repos/iuc/seqtk/seqtk_dropse/1.3.0 2018-11-01 1
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4179 toolshed.g2.bx.psu.edu/repos/iuc/qiime_count_seqs/qiime_count_seqs/1.9.1.0 2018-11-01 1
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4180 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_mascotadapter/MascotAdapter/2.3.0 2018-11-01 1
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4181 toolshed.g2.bx.psu.edu/repos/devteam/fastq_quality_boxplot/cshl_fastq_quality_boxplot/1.0.1 2018-11-01 1
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4182 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_RPKM_saturation/2.6.4.1 2018-11-01 1
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4183 toolshed.g2.bx.psu.edu/repos/iuc/jbrowse/jbrowse_to_standalone/1.12.5+galaxy1 2018-11-01 1
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4184 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_featurefindermetabo/FeatureFinderMetabo/2.3.0 2018-11-01 1
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4185 toolshed.g2.bx.psu.edu/repos/iuc/qiime_make_otu_table/qiime_make_otu_table/1.9.1.0 2018-11-01 1
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4186 toolshed.g2.bx.psu.edu/repos/iuc/qiime_make_phylogeny/qiime_make_phylogeny/1.9.1.0 2018-11-01 1
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4187 toolshed.g2.bx.psu.edu/repos/fcaramia/varscan/varscan_somatic/2.3.5 2018-11-01 1
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4188 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastdbcmd_wrapper/0.3.1 2018-11-01 1
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4189 toolshed.g2.bx.psu.edu/repos/iuc/bam_to_scidx/bam_to_scidx/1.0.1 2018-11-01 1
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4190 toolshed.g2.bx.psu.edu/repos/iuc/iqtree/iqtree/1.5.5.1 2018-11-01 1
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4191 toolshed.g2.bx.psu.edu/repos/devteam/vcf2pgsnp/vcf2pgSnp/1.0.0 2018-11-01 1
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4195 toolshed.g2.bx.psu.edu/repos/iuc/mothur_list_seqs/mothur_list_seqs/1.39.5.0 2018-11-01 1
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4197 toolshed.g2.bx.psu.edu/repos/iuc/qiime_pick_rep_set/qiime_pick_rep_set/1.9.1.0 2018-11-01 1
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4198 toolshed.g2.bx.psu.edu/repos/nick/allele_counts/allele_counts_1/1.2 2018-11-01 1
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4199 toolshed.g2.bx.psu.edu/repos/iuc/resize_coordinate_window/resize_coordinate_window/1.0.1 2018-11-01 1
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4200 toolshed.g2.bx.psu.edu/repos/iuc/mothur_phylotype/mothur_phylotype/1.39.5.0 2018-11-01 1
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4201 toolshed.g2.bx.psu.edu/repos/iuc/exonerate/exonerate/2.4.0 2018-11-01 1
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4203 toolshed.g2.bx.psu.edu/repos/iuc/hmmer3/hmmer_jackhmmer/0.1.0 2018-11-01 1
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4204 toolshed.g2.bx.psu.edu/repos/iuc/mothur_pcr_seqs/mothur_pcr_seqs/1.39.5.0 2018-11-01 1
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4208 toolshed.g2.bx.psu.edu/repos/earlhaminst/replace_chromosome_names/replace_chromosome_names/0.1 2018-11-01 1
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4209 toolshed.g2.bx.psu.edu/repos/devteam/fastq_to_tabular/fastq_to_tabular/1.1.0 2018-11-01 1
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4210 toolshed.g2.bx.psu.edu/repos/crs4/edena/edena_ovl_wrapper/0.3 2018-11-01 1
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4211 toolshed.g2.bx.psu.edu/repos/iuc/hmmer3/hmmer_hmmscan/0.1.0 2018-11-01 1
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4212 toolshed.g2.bx.psu.edu/repos/devteam/emboss_5/EMBOSS: einverted28/5.0.0.1 2018-11-01 1
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4213 toolshed.g2.bx.psu.edu/repos/bgruening/infernal/infernal_cmalign/1.1.2.0 2018-11-01 1
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4214 toolshed.g2.bx.psu.edu/repos/iuc/bcftools_cnv/bcftools_cnv/1.4.0.0 2018-11-01 1
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4215 toolshed.g2.bx.psu.edu/repos/anton/vcfallelicprimitives/vcfallelicprimitives/0.0.1 2018-11-01 1
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4216 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_cometadapter/CometAdapter/2.3.0 2018-11-01 1
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4217 toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpEff_databases/4.3r.1 2018-11-01 1
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4218 toolshed.g2.bx.psu.edu/repos/anton/vcfcheck/vcfcheck/0.0.1 2018-11-01 1
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4221 toolshed.g2.bx.psu.edu/repos/bgruening/sklearn_searchcv/sklearn_searchcv/0.9 2018-10-01 6439
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4222 toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.71 2018-10-01 3033
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4238 toolshed.g2.bx.psu.edu/repos/earlhaminst/ensembl_get_sequences/get_sequences/0.1.2 2018-10-01 2336
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4239 toolshed.g2.bx.psu.edu/repos/bgruening/infernal/infernal_cmsearch/1.1.2.0 2018-10-01 2069
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4241 toolshed.g2.bx.psu.edu/repos/rnateam/graphclust_cmfinder/cmFinder/0.4 2018-10-01 2028
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4242 toolshed.g2.bx.psu.edu/repos/rnateam/graphclust_mlocarna/locarna_best_subtree/0.4 2018-10-01 1984
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4446 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_CollectRnaSeqMetrics/2.18.2.1 2018-10-01 54
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4503 toolshed.g2.bx.psu.edu/repos/galaxyp/msi_ion_images/mass_spectrometry_imaging_ion_images/1.10.0.5 2018-10-01 37
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4504 toolshed.g2.bx.psu.edu/repos/devteam/fastx_reverse_complement/cshl_fastx_reverse_complement/1.0.2 2018-10-01 36
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4505 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_idmassaccuracy/IDMassAccuracy/2.3.0 2018-10-01 36
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4506 toolshed.g2.bx.psu.edu/repos/bgruening/graphicsmagick_image_convert/graphicsmagick_image_convert/1.3.26 2018-10-01 36
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4507 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_proteinresolver/ProteinResolver/2.3.0 2018-10-01 36
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4508 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_fileinfo/FileInfo/2.2.0 2018-10-01 36
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4509 toolshed.g2.bx.psu.edu/repos/iuc/varscan_somatic/varscan_somatic/2.4.3.1 2018-10-01 36
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4510 toolshed.g2.bx.psu.edu/repos/devteam/cuffdiff/cuffdiff/2.2.1.5 2018-10-01 36
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4511 toolshed.g2.bx.psu.edu/repos/iuc/featurecounts/featurecounts/1.6.2 2018-10-01 36
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4512 toolshed.g2.bx.psu.edu/repos/devteam/emboss_5/EMBOSS: geecee41/5.0.0 2018-10-01 36
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4513 toolshed.g2.bx.psu.edu/repos/devteam/fastx_reverse_complement/cshl_fastx_reverse_complement/1.0.0 2018-10-01 36
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4514 toolshed.g2.bx.psu.edu/repos/rnateam/graphclust_postprocessing/glob_report/0.4 2018-10-01 35
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4515 toolshed.g2.bx.psu.edu/repos/crs4/taxonomy_krona_chart/taxonomy_krona_chart/2.6.1.1 2018-10-01 35
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4516 toolshed.g2.bx.psu.edu/repos/rnateam/graphclust_prepocessing_for_mlocarna/preMloc/0.3 2018-10-01 35
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4517 toolshed.g2.bx.psu.edu/repos/eschen42/w4mclassfilter/w4mclassfilter/0.98.10 2018-10-01 35
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4518 toolshed.g2.bx.psu.edu/repos/rnateam/graphclust_nspdk/NSPDK_candidateClust/9.2.2 2018-10-01 35
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4519 toolshed.g2.bx.psu.edu/repos/rnateam/graphclust_nspdk/nspdk_sparse/9.2.2 2018-10-01 35
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4520 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_SortSam/2.18.2.1 2018-10-01 35
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4521 toolshed.g2.bx.psu.edu/repos/rnateam/graphclust_preprocessing/preproc/0.4 2018-10-01 35
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4522 toolshed.g2.bx.psu.edu/repos/iuc/heinz/heinz_scoring/1.0 2018-10-01 34
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4523 toolshed.g2.bx.psu.edu/repos/iuc/dexseq/dexseq_count/1.24.0.0 2018-10-01 34
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4524 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_mergebed/2.27.0.0 2018-10-01 34
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4525 toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hicpca/hicexplorer_hicpca/2.1.4.0 2018-10-01 34
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4526 toolshed.g2.bx.psu.edu/repos/iuc/varscan_copynumber/varscan_copynumber/2.4.3.1 2018-10-01 34
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4527 ip_projective_transformation_points 2018-10-01 34
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4528 toolshed.g2.bx.psu.edu/repos/iuc/egsea/egsea/1.6.0.1 2018-10-01 32
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4529 toolshed.g2.bx.psu.edu/repos/iuc/poretools_extract/poretools_extract/0.6.1a1.0 2018-10-01 32
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4530 toolshed.g2.bx.psu.edu/repos/iuc/mothur_heatmap_sim/mothur_heatmap_sim/1.39.5.0 2018-10-01 32
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4531 toolshed.g2.bx.psu.edu/repos/galaxyp/maldi_quant_peak_detection/maldi_quant_peak_detection/1.18.0.1 2018-10-01 32
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4532 CONVERTER_bam_to_qname_sorted_bam 2018-10-01 32
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4533 toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fastq_dump/2.8.1.3 2018-10-01 32
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4534 toolshed.g2.bx.psu.edu/repos/iuc/humann2_renorm_table/humann2_renorm_table/0.11.1.0 2018-10-01 31
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4535 toolshed.g2.bx.psu.edu/repos/iuc/stacks_procrad/stacks_procrad/1.46.0 2018-10-01 31
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4536 extract_aln_ends.py 2018-10-01 30
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4537 merge_pcr_duplicates.py 2018-10-01 30
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4539 remove_tail.py 2018-10-01 30
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4540 toolshed.g2.bx.psu.edu/repos/devteam/samtools_flagstat/samtools_flagstat/2.0 2018-10-01 30
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4541 flexbar_no_split 2018-10-01 30
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4542 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_bam2wig/2.6.4 2018-10-01 30
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4543 rm_spurious_events.py 2018-10-01 30
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4544 __UNZIP_COLLECTION__ 2018-10-01 30
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4546 toolshed.g2.bx.psu.edu/repos/devteam/bam_to_sam/bam_to_sam/2.0 2018-10-01 30
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4547 toolshed.g2.bx.psu.edu/repos/ethevenot/checkformat/checkFormat/3.0.0 2018-10-01 29
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4549 toolshed.g2.bx.psu.edu/repos/devteam/bowtie_wrappers/bowtie_wrapper/1.2.0 2018-10-01 29
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4550 toolshed.g2.bx.psu.edu/repos/galaxyp/lfq_protein_quant/lfq_protein_quant/1.0 2018-10-01 29
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4551 toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_multijoin_tool/1.1.1 2018-10-01 29
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4552 toolshed.g2.bx.psu.edu/repos/nml/spades/spades/3.11.1+galaxy1 2018-10-01 29
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4553 toolshed.g2.bx.psu.edu/repos/devteam/emboss_5/EMBOSS: getorf42/5.0.0.1 2018-10-01 29
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4555 toolshed.g2.bx.psu.edu/repos/iuc/column_order_header_sort/column_order_header_sort/0.0.1 2018-10-01 29
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4557 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_plot_pca/deeptools_plot_pca/3.1.2.0.0 2018-10-01 29
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4558 toolshed.g2.bx.psu.edu/repos/rnateam/graphclust_postprocessing_no_align/graphclust_glob_report_no_align/0.5 2018-10-01 29
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4560 toolshed.g2.bx.psu.edu/repos/iuc/mothur_pre_cluster/mothur_pre_cluster/1.39.5.0 2018-10-01 28
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4562 toolshed.g2.bx.psu.edu/repos/devteam/macs/peakcalling_macs/1.0.1 2018-10-01 28
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4563 __EXPORT_HISTORY__ 2018-10-01 27
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4564 toolshed.g2.bx.psu.edu/repos/iuc/heinz/heinz_visualization/0.1.0 2018-10-01 27
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4565 toolshed.g2.bx.psu.edu/repos/iuc/featurecounts/featurecounts/1.6.1.0 2018-10-01 27
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4566 toolshed.g2.bx.psu.edu/repos/iuc/gemini_query/gemini_query/0.18.1.0 2018-10-01 27
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4567 toolshed.g2.bx.psu.edu/repos/iuc/fgsea/fgsea/1.6.0 2018-10-01 27
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4586 toolshed.g2.bx.psu.edu/repos/iuc/annotatemyids/annotateMyIDs/3.5.0.0 2018-10-01 24
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4587 toolshed.g2.bx.psu.edu/repos/iuc/extract_genomic_dna/Extract genomic DNA 1/3.0.2 2018-10-01 24
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4623 toolshed.g2.bx.psu.edu/repos/devteam/picard/rgPicardMarkDups/1.56.0 2018-10-01 20
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4626 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_RPKM_saturation/2.6.4.1 2018-10-01 19
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4631 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_makeblastdb/0.3.0 2018-10-01 19
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4696 toolshed.g2.bx.psu.edu/repos/iuc/hmmer3/hmmer_hmmbuild/0.1.0 2018-10-01 12
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4700 toolshed.g2.bx.psu.edu/repos/iuc/hmmer3/hmmer_hmmsearch/0.1.0 2018-10-01 12
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4701 toolshed.g2.bx.psu.edu/repos/lparsons/htseq_count/htseq_count/0.6.1galaxy1 2018-10-01 12
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4703 toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_replace_in_column/1.1.0 2018-10-01 12
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4708 toolshed.g2.bx.psu.edu/repos/iuc/mothur_get_groups/mothur_get_groups/1.39.5.0 2018-10-01 11
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4710 toolshed.g2.bx.psu.edu/repos/devteam/principal_component_analysis/pca1/1.0.2 2018-10-01 11
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4711 CONVERTER_sam_to_bigwig_0 2018-10-01 11
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4712 toolshed.g2.bx.psu.edu/repos/galaxyp/msi_spectra_plot/mass_spectrometry_imaging_mzplots/1.10.0.6 2018-10-01 11
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4713 toolshed.g2.bx.psu.edu/repos/crs4/taxonomy_krona_chart/taxonomy_krona_chart/2.6.1 2018-10-01 11
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4715 toolshed.g2.bx.psu.edu/repos/iuc/deseq2/deseq2/2.11.40.1 2018-10-01 11
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4716 toolshed.g2.bx.psu.edu/repos/iuc/snpsift/snpSift_filter/4.3+t.galaxy0 2018-10-01 11
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4718 toolshed.g2.bx.psu.edu/repos/bgruening/svm_classifier/svm_classifier/0.9 2018-10-01 11
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4719 CONVERTER_bz2_to_uncompressed 2018-10-01 11
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4720 toolshed.g2.bx.psu.edu/repos/iuc/graphlan_annotate/graphlan_annotate/1.0.0.0 2018-10-01 11
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4721 toolshed.g2.bx.psu.edu/repos/rnateam/piranha/piranha/0.1.0 2018-10-01 11
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4722 toolshed.g2.bx.psu.edu/repos/iuc/samtools_sort/samtools_rmdup/1.0.1 2018-10-01 11
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4723 toolshed.g2.bx.psu.edu/repos/bgruening/interproscan5/interproscan/5.0.0 2018-10-01 10
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4724 toolshed.g2.bx.psu.edu/repos/devteam/fastq_to_fasta/cshl_fastq_to_fasta/1.0.2 2018-10-01 10
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4725 toolshed.g2.bx.psu.edu/repos/devteam/vcftools_isec/vcftools_isec/0.1.1 2018-10-01 10
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4727 toolshed.g2.bx.psu.edu/repos/iuc/mothur_sub_sample/mothur_sub_sample/1.39.5.0 2018-10-01 10
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4728 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_infer_experiment/2.4 2018-10-01 10
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4729 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastp_wrapper/0.3.0 2018-10-01 10
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4731 toolshed.g2.bx.psu.edu/repos/devteam/flanking_features/flanking_features_1/4.0.1 2018-10-01 10
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4732 toolshed.g2.bx.psu.edu/repos/iuc/mothur_make_group/mothur_make_group/1.39.5.0 2018-10-01 10
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4733 CONVERTER_bed_to_fli_0 2018-10-01 10
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4734 CONVERTER_interval_to_bed12_0 2018-10-01 10
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4735 toolshed.g2.bx.psu.edu/repos/devteam/fastx_trimmer/cshl_fastx_trimmer/1.0.2 2018-10-01 10
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4737 toolshed.g2.bx.psu.edu/repos/iuc/mothur_seq_error/mothur_seq_error/1.39.5.0 2018-10-01 9
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4740 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_bamtofastq/2.27.0.0 2018-10-01 9
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4742 CONVERTER_bam_to_bigwig_0 2018-10-01 9
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4744 toolshed.g2.bx.psu.edu/repos/galaxyp/msconvert_nix/msconvert_nix/3.0.9992.0 2018-10-01 9
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4745 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_peakpickerhires/PeakPickerHiRes/2.3.0 2018-10-01 9
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4748 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_idfileconverter/IDFileConverter/2.3.0 2018-10-01 9
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4749 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_plot_heatmap/deeptools_plot_heatmap/2.5.1.1.0 2018-10-01 9
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4750 toolshed.g2.bx.psu.edu/repos/blankenberg/naive_variant_caller/naive_variant_caller/0.0.3 2018-10-01 9
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4754 toolshed.g2.bx.psu.edu/repos/iuc/gemini_comp_hets/gemini_comp_hets/0.18.1.0 2018-10-01 9
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4755 toolshed.g2.bx.psu.edu/repos/iuc/bctools_extract_alignment_ends/bctools_extract_alignment_ends/0.2.2 2018-10-01 8
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4756 toolshed.g2.bx.psu.edu/repos/iuc/mothur_summary_single/mothur_summary_single/1.39.5.0 2018-10-01 8
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4783 toolshed.g2.bx.psu.edu/repos/rnateam/blockbuster/blockbuster/0.1.2 2018-10-01 7
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4787 toolshed.g2.bx.psu.edu/repos/iuc/gemini_db_info/gemini_db_info/0.18.1.0 2018-10-01 7
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4795 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_plot_correlation/deeptools_plot_correlation/2.5.7.0 2018-10-01 6
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4819 toolshed.g2.bx.psu.edu/repos/devteam/pileup_parser/pileup_parser/1.0.2 2018-10-01 6
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4823 toolshed.g2.bx.psu.edu/repos/iuc/gemini_de_novo/gemini_de_novo/0.18.1.0 2018-10-01 6
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4895 toolshed.g2.bx.psu.edu/repos/devteam/gi2taxonomy/Fetch Taxonomic Ranks/1.1.0 2018-10-01 4
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4898 toolshed.g2.bx.psu.edu/repos/iuc/trinity_super_transcripts/trinity_super_transcripts/2.8.4 2018-10-01 4
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4901 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_plot_profile/deeptools_plot_profile/2.5.1.1.0 2018-10-01 4
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4911 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastx_wrapper/0.3.1 2018-10-01 3
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4913 toolshed.g2.bx.psu.edu/repos/iuc/bandage/bandage_info/0.8.1+galaxy0 2018-10-01 3
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4914 toolshed.g2.bx.psu.edu/repos/pavlo-lutsik/rnbeads/rnbeads/0.91 2018-10-01 3
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4915 toolshed.g2.bx.psu.edu/repos/bgruening/sklearn_nn_classifier/sklearn_nn_classifier/0.9 2018-10-01 3
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4916 toolshed.g2.bx.psu.edu/repos/iuc/mothur_summary_seqs/mothur_summary_seqs/1.36.1.0 2018-10-01 3
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4917 toolshed.g2.bx.psu.edu/repos/nml/spades/spades/1.2 2018-10-01 3
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4918 toolshed.g2.bx.psu.edu/repos/iuc/column_remove_by_header/column_remove_by_header/0.0.1 2018-10-01 3
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4919 toolshed.g2.bx.psu.edu/repos/bgruening/trna_prediction/trnascan/0.4 2018-10-01 3
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4920 toolshed.g2.bx.psu.edu/repos/devteam/column_maker/Add_a_column1/1.2.0 2018-10-01 3
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4921 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicatesWithMateCigar/2.18.2.1 2018-10-01 3
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4922 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_featurefindermetabo/FeatureFinderMetabo/2.3.0 2018-10-01 3
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4923 toolshed.g2.bx.psu.edu/repos/bgruening/diamond/bg_diamond/0.8.24.1 2018-10-01 3
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4924 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_bam_stat/2.6.4 2018-10-01 3
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4925 toolshed.g2.bx.psu.edu/repos/bgruening/sklearn_generalized_linear/sklearn_generalized_linear/0.9 2018-10-01 3
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4926 toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpEff_databases/4.3r.1 2018-10-01 3
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4928 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_geneBody_coverage/2.6.4.1 2018-10-01 3
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4929 toolshed.g2.bx.psu.edu/repos/devteam/cuffcompare/cuffcompare/2.2.1.1 2018-10-01 3
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4931 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/2.7.1.2 2018-10-01 3
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4933 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_multiplexresolver/MultiplexResolver/2.3.0 2018-10-01 3
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4934 toolshed.g2.bx.psu.edu/repos/iuc/varscan_somatic/varscan_somatic/2.4.3.0 2018-10-01 3
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4938 toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hicplotdistvscounts/hicexplorer_hicplotdistvscounts/2.1.4.0 2018-10-01 3
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4943 toolshed.g2.bx.psu.edu/repos/iuc/gemini_stats/gemini_stats/0.18.1.0 2018-10-01 3
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4945 toolshed.g2.bx.psu.edu/repos/devteam/samtools_split/samtools_split/1.3.1 2018-10-01 3
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4947 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_tblastx_wrapper/0.3.0 2018-10-01 3
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4949 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_closestbed/2.27.0.0 2018-10-01 3
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5019 toolshed.g2.bx.psu.edu/repos/galaxyp/maldi_quant_preprocessing/maldi_quant_preprocessing/1.18.0.2 2018-10-01 2
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5021 toolshed.g2.bx.psu.edu/repos/iuc/mothur_fastq_info/mothur_fastq_info/1.39.5.0 2018-10-01 2
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5023 toolshed.g2.bx.psu.edu/repos/bgruening/protease_prediction/eden_protease_prediction/0.9 2018-10-01 2
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5024 toolshed.g2.bx.psu.edu/repos/iuc/trinity_run_de_analysis/trinity_run_de_analysis/2.8.3 2018-10-01 2
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5026 toolshed.g2.bx.psu.edu/repos/bgruening/nn_classifier/nn_classifier/0.9 2018-10-01 2
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5029 toolshed.g2.bx.psu.edu/repos/devteam/draw_stacked_barplots/draw_stacked_barplots/1.0.0 2018-10-01 2
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5030 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_featurelinkerunlabeledqt/FeatureLinkerUnlabeledQT/2.3.0 2018-10-01 2
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5031 toolshed.g2.bx.psu.edu/repos/iuc/mothur_make_shared/mothur_make_shared/1.36.1.0 2018-10-01 2
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5039 toolshed.g2.bx.psu.edu/repos/earlhaminst/t_coffee/t_coffee/11.0.8 2018-10-01 2
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5043 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_fileconverter/FileConverter/2.1.0 2018-10-01 2
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5045 toolshed.g2.bx.psu.edu/repos/fcaramia/varscan/varscan_somatic/2.3.5 2018-10-01 2
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5046 toolshed.g2.bx.psu.edu/repos/rnateam/rcas/rcas/1.5.4 2018-10-01 2
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5047 toolshed.g2.bx.psu.edu/repos/iuc/mothur_screen_seqs/mothur_screen_seqs/1.36.1.0 2018-10-01 2
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5048 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_fileconverter/FileConverter/2.3.0 2018-10-01 2
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5049 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_ticcalculator/TICCalculator/2.3.0 2018-10-01 2
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5050 toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fastq_dump/2.8.0 2018-10-01 2
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5051 toolshed.g2.bx.psu.edu/repos/devteam/fasta_formatter/cshl_fasta_formatter/1.0.1 2018-10-01 2
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5052 toolshed.g2.bx.psu.edu/repos/rnateam/sortmerna/bg_sortmerna/2.1b.5 2018-10-01 2
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5053 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_NormalizeFasta/2.18.2.1 2018-10-01 2
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5054 toolshed.g2.bx.psu.edu/repos/iuc/mothur_unique_seqs/mothur_unique_seqs/1.36.1.0 2018-10-01 2
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5055 toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpSift_annotate/3.4 2018-10-01 2
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5058 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_SamToFastq/2.18.2.1 2018-10-01 2
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5062 toolshed.g2.bx.psu.edu/repos/iuc/snippy/snippy_core/3.2 2018-10-01 2
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5063 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_plot_correlation/deeptools_plot_correlation/2.5.1.1.0 2018-10-01 2
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5070 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_compute_matrix/deeptools_compute_matrix/3.0.1.0 2018-10-01 2
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5075 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastdbcmd_info/0.3.0 2018-10-01 1
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5077 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_read_duplication/2.6.4 2018-10-01 1
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5078 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_featurelinkerunlabeled/FeatureLinkerUnlabeled/2.3.0 2018-10-01 1
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5079 toolshed.g2.bx.psu.edu/repos/bgruening/sklearn_svm_classifier/sklearn_svm_classifier/0.9 2018-10-01 1
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5080 toolshed.g2.bx.psu.edu/repos/devteam/short_reads_trim_seq/trim_reads/1.0.0 2018-10-01 1
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5081 toolshed.g2.bx.psu.edu/repos/devteam/t2ps/Draw_phylogram/1.0.0 2018-10-01 1
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5083 toolshed.g2.bx.psu.edu/repos/iuc/vt_variant_tools/vt_normalize/0.1.0 2018-10-01 1
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5085 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_masscalculator/MassCalculator/2.3.0 2018-10-01 1
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5099 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_xmlvalidator/XMLValidator/2.3.0 2018-10-01 1
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5100 toolshed.g2.bx.psu.edu/repos/devteam/samtools_flagstat/samtools_flagstat/1.0.0 2018-10-01 1
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5104 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastp_wrapper/0.3.1 2018-10-01 1
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5106 toolshed.g2.bx.psu.edu/repos/jjohnson/find_in_reference/find_in_reference/0.0.3 2018-10-01 1
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5115 toolshed.g2.bx.psu.edu/repos/devteam/emboss_5/EMBOSS: wordcount109/5.0.0.1 2018-10-01 1
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5118 toolshed.g2.bx.psu.edu/repos/iuc/mothur_remove_lineage/mothur_remove_lineage/1.36.1.0 2018-10-01 1
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5123 toolshed.g2.bx.psu.edu/repos/iuc/mothur_remove_groups/mothur_remove_groups/1.36.1.0 2018-10-01 1
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5124 toolshed.g2.bx.psu.edu/repos/fcaramia/varscan/varscan_mpileup/2.3.5 2018-10-01 1
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5130 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools/deeptools_bamCoverage/1.1.0 2018-10-01 1
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5131 toolshed.g2.bx.psu.edu/repos/iuc/qiime_make_phylogeny/qiime_make_phylogeny/1.9.1.0 2018-10-01 1
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5136 toolshed.g2.bx.psu.edu/repos/iuc/humann2_renorm_table/humann2_renorm_table/0.9.9.0 2018-10-01 1
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5137 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_junction_saturation/2.6.4.1 2018-10-01 1
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5138 toolshed.g2.bx.psu.edu/repos/ethevenot/qualitymetrics/quality_metrics/2.2.6 2018-10-01 1
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5140 toolshed.g2.bx.psu.edu/repos/iuc/poretools_qualdist/poretools_qualdist/0.6.1a1.0 2018-10-01 1
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5141 toolshed.g2.bx.psu.edu/repos/iuc/khmer_extract_partitions/khmer_extract_partitions/2.0.0 2018-10-01 1
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5144 toolshed.g2.bx.psu.edu/repos/devteam/fastx_clipper/cshl_fastx_clipper/1.0.3 2018-10-01 1
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5147 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_tblastx_wrapper/0.3.1 2018-10-01 1
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5148 toolshed.g2.bx.psu.edu/repos/iuc/unicycler/unicycler/0.2.0 2018-10-01 1
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5150 toolshed.g2.bx.psu.edu/repos/iuc/mothur_dist_seqs/mothur_dist_seqs/1.36.1.0 2018-10-01 1
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5152 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_bedtoigv/2.27.0.0 2018-10-01 1
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5153 toolshed.g2.bx.psu.edu/repos/iuc/mothur_cluster_split/mothur_cluster_split/1.36.1.0 2018-10-01 1
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5154 toolshed.g2.bx.psu.edu/repos/chemteam/gmx_solvate/gmx_solvate/2018.2 2018-10-01 1
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5155 toolshed.g2.bx.psu.edu/repos/anton/vcfannotate/vcfannotate/0.0.1 2018-10-01 1
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5158 toolshed.g2.bx.psu.edu/repos/iuc/length_and_gc_content/length_and_gc_content/0.1.1 2018-10-01 1
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5159 toolshed.g2.bx.psu.edu/repos/bgruening/protein_properties/bg_protein_properties/0.1.0 2018-10-01 1
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5162 toolshed.g2.bx.psu.edu/repos/iuc/umi_tools_group/umi_tools_group/0.5.3.0 2018-10-01 1
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5163 toolshed.g2.bx.psu.edu/repos/iuc/limma_voom/limma_voom/3.34.9.7 2018-10-01 1
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5167 toolshed.g2.bx.psu.edu/repos/devteam/complement/gops_complement_1/1.0.0 2018-10-01 1
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5170 toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpEff_download/4.0.0 2018-10-01 1
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5171 toolshed.g2.bx.psu.edu/repos/galaxyp/msi_filtering/mass_spectrometry_imaging_filtering/1.10.0.4 2018-10-01 1
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5172 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_CollectBaseDistributionByCycle/2.18.2.1 2018-10-01 1
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5174 toolshed.g2.bx.psu.edu/repos/devteam/fastx_renamer/cshl_fastx_renamer/0.0.11 2018-10-01 1
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5175 toolshed.g2.bx.psu.edu/repos/iuc/mothur_filter_seqs/mothur_filter_seqs/1.36.1.0 2018-10-01 1
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5177 toolshed.g2.bx.psu.edu/repos/devteam/vcftools_merge/vcftools_merge/0.1.1 2018-10-01 1
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5179 toolshed.g2.bx.psu.edu/repos/earlhaminst/ensembl_get_feature_info/get_feature_info/0.1.2 2018-10-01 1
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5180 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_precursormasscorrector/PrecursorMassCorrector/2.3.0 2018-10-01 1
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5181 toolshed.g2.bx.psu.edu/repos/bgruening/sklearn_clf_metrics/sklearn_clf_metrics/0.9 2018-10-01 1
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5182 toolshed.g2.bx.psu.edu/repos/iuc/mothur_cluster/mothur_cluster/1.36.1.0 2018-10-01 1
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5183 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_compnovo/CompNovo/2.3.0 2018-10-01 1
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5184 toolshed.g2.bx.psu.edu/repos/iuc/msaboot/msaboot/0.1.2 2018-10-01 1
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5185 toolshed.g2.bx.psu.edu/repos/iuc/mothur_get_communitytype/mothur_get_communitytype/1.36.1.0 2018-10-01 1
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5194 toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_filtering/cardinal_filtering/1.12.1.1 2018-10-01 1
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5195 toolshed.g2.bx.psu.edu/repos/iuc/fastp/fastp/0.19.3.3 2018-10-01 1
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5202 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_annotatebed/2.27.0.0 2018-10-01 1
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5203 toolshed.g2.bx.psu.edu/repos/bgruening/glimmer3/glimmer_build-icm/0.2 2018-10-01 1
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5205 toolshed.g2.bx.psu.edu/repos/devteam/vcf2pgsnp/vcf2pgSnp/1.0.0 2018-10-01 1
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5207 toolshed.g2.bx.psu.edu/repos/iuc/mothur_dist_shared/mothur_dist_shared/1.36.1.0 2018-10-01 1
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5208 toolshed.g2.bx.psu.edu/repos/iuc/deseq2/deseq2/2.11.38 2018-10-01 1
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5209 toolshed.g2.bx.psu.edu/repos/iuc/bcftools/bcfview/0.1.19 2018-10-01 1
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5211 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_consensusmapnormalizer/ConsensusMapNormalizer/2.3.0 2018-10-01 1
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5212 toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_mz_images/cardinal_mz_images/1.12.1.1 2018-10-01 1
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5213 gtf2bedgraph 2018-10-01 1
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5214 toolshed.g2.bx.psu.edu/repos/iuc/mothur_chimera_uchime/mothur_chimera_uchime/1.36.1.0 2018-10-01 1
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5215 CONVERTER_interval_to_bed6_0 2018-10-01 1
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5216 toolshed.g2.bx.psu.edu/repos/iuc/macs2/macs2_bdgdiff/2.1.1.20160309.1 2018-10-01 1
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5217 toolshed.g2.bx.psu.edu/repos/bgruening/nanopolish_methylation/nanopolish_methylation/0.1.0 2018-10-01 1
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5218 toolshed.g2.bx.psu.edu/repos/iuc/picrust_metagenome_contributions/picrust_metagenome_contributions/1.1.1.0 2018-10-01 1
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5219 toolshed.g2.bx.psu.edu/repos/bgruening/nanopolish_eventalign/nanopolish_eventalign/0.1.0 2018-10-01 1
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5220 __FILTER_FAILED_DATASETS__ 2018-10-01 1
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5221 toolshed.g2.bx.psu.edu/repos/iuc/kallisto_quant/kallisto_quant/0.43.1.3 2018-10-01 1
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5222 toolshed.g2.bx.psu.edu/repos/devteam/ctd_batch/ctdBatch_1/1.0.0 2018-10-01 1
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5224 toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.63 2018-10-01 1
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5225 toolshed.g2.bx.psu.edu/repos/iuc/volcanoplot/volcanoplot/0.0.1 2018-10-01 1
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5226 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_segmasker_wrapper/0.3.1 2018-10-01 1
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5227 toolshed.g2.bx.psu.edu/repos/iuc/picrust_categorize/picrust_categorize/1.1.1.0 2018-10-01 1
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5228 toolshed.g2.bx.psu.edu/repos/iuc/snpsift/snpSift_annotate/4.3+t.galaxy0 2018-10-01 1
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5229 toolshed.g2.bx.psu.edu/repos/iuc/mothur_align_seqs/mothur_align_seqs/1.36.1.0 2018-10-01 1
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5230 toolshed.g2.bx.psu.edu/repos/devteam/sam_to_bam/sam_to_bam/1.1.2 2018-10-01 1
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5231 toolshed.g2.bx.psu.edu/repos/devteam/data_manager_build_kraken_database/kraken_database_builder/1.1 2018-10-01 1
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5232 toolshed.g2.bx.psu.edu/repos/galaxyp/peptideshaker/search_gui/3.2.13.3 2018-10-01 1
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5233 toolshed.g2.bx.psu.edu/repos/lecorguille/xcms_retcor/abims_xcms_retcor/2.1.0 2018-10-01 1
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5234 toolshed.g2.bx.psu.edu/repos/iuc/mothur_summary_single/mothur_summary_single/1.36.1.0 2018-10-01 1
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5235 toolshed.g2.bx.psu.edu/repos/rnateam/splitfasta/rbc_splitfasta/0.2.0 2018-10-01 1
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5236 toolshed.g2.bx.psu.edu/repos/iuc/bcftools_call/bcftools_call/1.4.0 2018-10-01 1
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5237 toolshed.g2.bx.psu.edu/repos/iuc/mothur_lefse/mothur_lefse/1.36.1.0 2018-10-01 1
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5238 toolshed.g2.bx.psu.edu/repos/devteam/data_manager_fetch_genome_dbkeys_all_fasta/data_manager_fetch_genome_all_fasta_dbkey/0.0.1 2018-10-01 1
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5239 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_shufflebed/2.27.0.0 2018-10-01 1
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5240 toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_haplotype_caller/2.8.0 2018-10-01 1
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5241 toolshed.g2.bx.psu.edu/repos/iuc/vsearch/vsearch_chimera_detection/2.8.3.0 2018-10-01 1
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5242 toolshed.g2.bx.psu.edu/repos/devteam/data_manager_twobit_builder/twobit_builder_data_manager/0.0.2 2018-10-01 1
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5243 toolshed.g2.bx.psu.edu/repos/iuc/pick_open_reference_otus/pick_open_reference_otus/1.9.1.0 2018-10-01 1
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5244 convert_bc_to_binary_RY.py 2018-10-01 1
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5245 toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_variant_validate/2.8.0 2018-10-01 1
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5246 toolshed.g2.bx.psu.edu/repos/crs4/prokka/prokka/1.12.0 2018-10-01 1
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5247 toolshed.g2.bx.psu.edu/repos/galaxyp/msconvert/msconvert_nix/3.0.0 2018-10-01 1
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5248 toolshed.g2.bx.psu.edu/repos/iuc/mothur_make_biom/mothur_make_biom/1.39.5.0 2018-10-01 1
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5249 toolshed.g2.bx.psu.edu/repos/iuc/deseq2/deseq2/2.1.8.0 2018-10-01 1
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5250 toolshed.g2.bx.psu.edu/repos/gbcs-embl-heidelberg/je_demultiplex_illu/je_demultiplex_illu/1.2.1 2018-10-01 1
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5251 CONVERTER_sdf_to_smiles 2018-10-01 1
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5252 toolshed.g2.bx.psu.edu/repos/iuc/abricate/abricate/0.8 2018-10-01 1
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5253 toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/2.8.0 2018-10-01 1
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5255 toolshed.g2.bx.psu.edu/repos/bgruening/bismark/bismark_deduplicate/0.20.0 2018-10-01 1
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5257 toolshed.g2.bx.psu.edu/repos/iuc/mothur_make_contigs/mothur_make_contigs/1.36.1.0 2018-10-01 1
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5258 toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_indel_realigner/0.0.7 2018-10-01 1
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5259 toolshed.g2.bx.psu.edu/repos/bgruening/sklearn_regression_metrics/sklearn_regression_metrics/0.9 2018-10-01 1
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5406 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/0.3.0 2018-09-01 71
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5407 toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_head_tool/1.1.0 2018-09-01 70
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5408 toolshed.g2.bx.psu.edu/repos/devteam/add_value/addValue/1.0.0 2018-09-01 70
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5409 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_fileinfo/FileInfo/2.2.0 2018-09-01 69
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5410 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_falsediscoveryrate/FalseDiscoveryRate/2.2.0 2018-09-01 69
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5411 toolshed.g2.bx.psu.edu/repos/iuc/datamash_ops/datamash_ops/1.1.0 2018-09-01 68
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5414 toolshed.g2.bx.psu.edu/repos/devteam/samtool_filter2/samtool_filter2/1.8 2018-09-01 66
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5415 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_plot_fingerprint/deeptools_plot_fingerprint/3.0.2.0 2018-09-01 66
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5417 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_plot_profile/deeptools_plot_profile/3.0.2.0 2018-09-01 64
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5418 toolshed.g2.bx.psu.edu/repos/devteam/tophat2/tophat2/2.1.1 2018-09-01 63
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5419 toolshed.g2.bx.psu.edu/repos/iuc/sickle/sickle/1.33.1 2018-09-01 63
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5421 toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_easyjoin_tool/1.1.1 2018-09-01 61
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5422 toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/1.1.1 2018-09-01 61
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5423 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/2.7.1.2 2018-09-01 60
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5424 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_infer_experiment/2.6.4 2018-09-01 60
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5425 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_geneBody_coverage/2.6.4.1 2018-09-01 60
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5426 toolshed.g2.bx.psu.edu/repos/devteam/samtools_flagstat/samtools_flagstat/2.0.1 2018-09-01 60
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5427 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_read_distribution/2.6.4 2018-09-01 60
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5428 toolshed.g2.bx.psu.edu/repos/iuc/gtftobed12/gtftobed12/357 2018-09-01 59
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5430 toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hicplottads/hicexplorer_hicplottads/2.1.4.0 2018-09-01 59
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5431 toolshed.g2.bx.psu.edu/repos/peterjc/blastxml_to_top_descr/blastxml_to_top_descr/0.1.1 2018-09-01 58
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5432 toolshed.g2.bx.psu.edu/repos/iuc/goseq/goseq/1.26.0 2018-09-01 58
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5433 toolshed.g2.bx.psu.edu/repos/eschen42/w4mclassfilter/w4mclassfilter/0.98.10 2018-09-01 57
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5434 toolshed.g2.bx.psu.edu/repos/iuc/metagenomeseq_normalization/metagenomeseq_normalizaton/1.16.0-0.0.1 2018-09-01 56
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5435 toolshed.g2.bx.psu.edu/repos/iuc/vsearch/vsearch_dereplication/2.8.3.0 2018-09-01 55
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5436 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_makeblastdb/0.3.0 2018-09-01 55
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5437 toolshed.g2.bx.psu.edu/repos/galaxyp/msi_ion_images/mass_spectrometry_imaging_ion_images/1.10.0.5 2018-09-01 54
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5438 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_fileinfo/FileInfo/2.3.0 2018-09-01 54
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5439 toolshed.g2.bx.psu.edu/repos/devteam/cummerbund/cummeRbund/2.16.0 2018-09-01 54
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5441 toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hicbuildmatrix/hicexplorer_hicbuildmatrix/2.1.2.0 2018-09-01 52
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5442 toolshed.g2.bx.psu.edu/repos/bgruening/bigwig_to_bedgraph/bigwig_to_bedgraph/0.1.0 2018-09-01 51
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5443 toolshed.g2.bx.psu.edu/repos/devteam/samtools_stats/samtools_stats/2.0.1 2018-09-01 51
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5444 toolshed.g2.bx.psu.edu/repos/bgruening/infernal/infernal_cmsearch/1.1.2.0 2018-09-01 51
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5445 toolshed.g2.bx.psu.edu/repos/rnateam/graphclust_mlocarna/locarna_best_subtree/0.3 2018-09-01 50
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5446 toolshed.g2.bx.psu.edu/repos/bgruening/canu/canu/1.7 2018-09-01 50
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5447 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_SamToFastq/2.18.2.1 2018-09-01 50
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5448 toolshed.g2.bx.psu.edu/repos/rnateam/graphclust_cmfinder/cmFinder/0.3 2018-09-01 50
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5449 __UNZIP_COLLECTION__ 2018-09-01 50
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5450 toolshed.g2.bx.psu.edu/repos/iuc/umi_tools_dedup/umi_tools_dedup/0.5.3.0 2018-09-01 50
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5451 toolshed.g2.bx.psu.edu/repos/bgruening/infernal/infernal_cmbuild/1.1.2.0 2018-09-01 50
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5452 toolshed.g2.bx.psu.edu/repos/iuc/metaphlan2krona/metaphlan2krona/2.6.0.0 2018-09-01 49
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5454 toolshed.g2.bx.psu.edu/repos/devteam/bam_to_sam/bam_to_sam/2.0 2018-09-01 49
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5455 toolshed.g2.bx.psu.edu/repos/iuc/featurecounts/featurecounts/1.6.1.0 2018-09-01 49
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5456 toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.2.6 2018-09-01 48
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5457 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_fidoadapter/FidoAdapter/2.3.0 2018-09-01 48
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5458 remove_tail.py 2018-09-01 48
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5459 coords2clnt.py 2018-09-01 48
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5462 toolshed.g2.bx.psu.edu/repos/iuc/dexseq/dexseq_count/1.24.0.0 2018-09-01 48
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5463 toolshed.g2.bx.psu.edu/repos/devteam/samtools_flagstat/samtools_flagstat/2.0 2018-09-01 48
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5464 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_idfilter/IDFilter/2.3.0 2018-09-01 48
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5465 toolshed.g2.bx.psu.edu/repos/iuc/featurecounts/featurecounts/1.5.3 2018-09-01 48
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5466 merge_pcr_duplicates.py 2018-09-01 48
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5467 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_idscoreswitcher/IDScoreSwitcher/2.3.0 2018-09-01 47
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5468 toolshed.g2.bx.psu.edu/repos/bebatut/format_metaphlan2_output/format_metaphlan2_output/0.1.0 2018-09-01 46
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5472 toolshed.g2.bx.psu.edu/repos/iuc/datamash_ops/datamash_ops/datamash_ops/1.0.6 2018-09-01 46
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5489 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_idposteriorerrorprobability/IDPosteriorErrorProbability/2.2.0 2018-09-01 40
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5501 toolshed.g2.bx.psu.edu/repos/iuc/annotatemyids/annotateMyIDs/3.5.0.0 2018-09-01 35
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5506 toolshed.g2.bx.psu.edu/repos/iuc/extract_genomic_dna/Extract genomic DNA 1/3.0.3 2018-09-01 34
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5534 toolshed.g2.bx.psu.edu/repos/devteam/fastq_to_tabular/fastq_to_tabular/1.1.1 2018-09-01 28
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5535 toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_replace_in_column/1.1.0 2018-09-01 28
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5536 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_getfastabed/2.27.0.1 2018-09-01 28
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5537 toolshed.g2.bx.psu.edu/repos/rnateam/chipseeker/chipseeker/1.14.2.1 2018-09-01 28
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5538 toolshed.g2.bx.psu.edu/repos/iuc/column_order_header_sort/column_order_header_sort/0.0.1 2018-09-01 28
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5539 CONVERTER_bed_gff_or_vcf_to_bigwig_0 2018-09-01 27
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5540 toolshed.g2.bx.psu.edu/repos/kellrott/regex_replace/regex_replace/1.0.0 2018-09-01 27
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5541 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_geneBody_coverage2/2.6.4.1 2018-09-01 27
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5542 toolshed.g2.bx.psu.edu/repos/iuc/megahit/megahit/1.1.2.3 2018-09-01 27
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5543 toolshed.g2.bx.psu.edu/repos/iuc/circos/circgraph/0.9-RC2 2018-09-01 27
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5544 toolshed.g2.bx.psu.edu/repos/devteam/sam_to_bam/sam_to_bam/2.1.1 2018-09-01 27
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5545 toolshed.g2.bx.psu.edu/repos/devteam/picard/rgPicardMarkDups/1.56.0 2018-09-01 27
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5546 toolshed.g2.bx.psu.edu/repos/devteam/sam_merge/sam_merge2/1.2.0 2018-09-01 26
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5547 toolshed.g2.bx.psu.edu/repos/nml/metaspades/metaspades/3.9.0 2018-09-01 26
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5548 toolshed.g2.bx.psu.edu/repos/galaxyp/quantp/quantp/1.0.0 2018-09-01 26
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5549 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_subtractbed/2.27.0.0 2018-09-01 25
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5550 toolshed.g2.bx.psu.edu/repos/bebatut/group_humann2_uniref_abundances_to_go/group_humann2_uniref_abundances_to_go/1.2.0 2018-09-01 25
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5551 toolshed.g2.bx.psu.edu/repos/iuc/mothur_summary_seqs/mothur_summary_seqs/1.39.5.0 2018-09-01 25
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5552 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_clusterbed/2.27.0.0 2018-09-01 25
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5553 toolshed.g2.bx.psu.edu/repos/devteam/fasta_to_tabular/fasta2tab/1.1.0 2018-09-01 24
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5555 toolshed.g2.bx.psu.edu/repos/devteam/fastq_trimmer/fastq_trimmer/1.1.1 2018-09-01 24
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5556 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_coveragebed/2.27.0.3 2018-09-01 24
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5557 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_bamtobed/2.27.0.0 2018-09-01 24
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5559 toolshed.g2.bx.psu.edu/repos/devteam/fasta_filter_by_length/fasta_filter_by_length/1.1 2018-09-01 24
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5560 toolshed.g2.bx.psu.edu/repos/devteam/fastq_filter/fastq_filter/1.1.1 2018-09-01 24
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5561 __EXPORT_HISTORY__ 2018-09-01 24
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5562 toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.52 2018-09-01 24
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5563 toolshed.g2.bx.psu.edu/repos/peterjc/seq_filter_by_id/seq_filter_by_id/0.2.7 2018-09-01 23
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5564 toolshed.g2.bx.psu.edu/repos/devteam/cufflinks/cufflinks/2.2.1.2 2018-09-01 23
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5565 toolshed.g2.bx.psu.edu/repos/iuc/vegan_rarefaction/vegan_rarefaction/2.4-3 2018-09-01 23
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5566 toolshed.g2.bx.psu.edu/repos/devteam/merge/gops_merge_1/1.0.0 2018-09-01 23
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5567 toolshed.g2.bx.psu.edu/repos/iuc/query_tabular/query_tabular/2.0.0 2018-09-01 23
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5568 toolshed.g2.bx.psu.edu/repos/iuc/samtools_sort/samtools_sort/1.0.2 2018-09-01 22
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5569 toolshed.g2.bx.psu.edu/repos/iuc/limma_voom/limma_voom/3.34.9.8 2018-09-01 22
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5570 toolshed.g2.bx.psu.edu/repos/bgruening/split_file_on_column/tp_split_on_column/0.2 2018-09-01 22
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5571 toolshed.g2.bx.psu.edu/repos/rnateam/mafft/rbc_mafft/7.221.3 2018-09-01 22
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5572 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_xtandemadapter/XTandemAdapter/2.3.0 2018-09-01 22
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5573 toolshed.g2.bx.psu.edu/repos/devteam/fastq_trimmer_by_quality/fastq_quality_trimmer/1.1.1 2018-09-01 22
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5574 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/blastxml_to_tabular/0.3.0 2018-09-01 22
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5576 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_idconflictresolver/IDConflictResolver/2.2.0 2018-09-01 21
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5577 toolshed.g2.bx.psu.edu/repos/crs4/prokka/prokka/1.13 2018-09-01 21
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5578 toolshed.g2.bx.psu.edu/repos/devteam/bam_to_sam/bam_to_sam/2.0.1 2018-09-01 21
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5580 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_featurefindermultiplex/FeatureFinderMultiplex/2.2.0 2018-09-01 21
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5581 toolshed.g2.bx.psu.edu/repos/iuc/unicycler/unicycler/0.4.6.0 2018-09-01 21
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5582 toolshed.g2.bx.psu.edu/repos/iuc/extract_genomic_dna/Extract genomic DNA 1/3.0.2 2018-09-01 21
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5583 toolshed.g2.bx.psu.edu/repos/devteam/merge_cols/mergeCols1/1.0.1 2018-09-01 21
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5585 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_proteinquantifier/ProteinQuantifier/2.2.0 2018-09-01 21
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5586 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_idmapper/IDMapper/2.2.0 2018-09-01 21
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5588 CONVERTER_gff_to_bed_0 2018-09-01 21
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5589 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_filefilter/FileFilter/2.3.0 2018-09-01 20
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5590 toolshed.g2.bx.psu.edu/repos/rnateam/sortmerna/bg_sortmerna/2.1b.4 2018-09-01 20
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5592 toolshed.g2.bx.psu.edu/repos/bgruening/diamond/bg_diamond/0.8.24.1 2018-09-01 20
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5593 toolshed.g2.bx.psu.edu/repos/iuc/deseq2/deseq2/2.11.39 2018-09-01 20
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5594 toolshed.g2.bx.psu.edu/repos/iuc/pygenometracks/pygenomeTracks/2.0.1 2018-09-01 19
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5596 toolshed.g2.bx.psu.edu/repos/iuc/edger/edger/3.20.7.2 2018-09-01 19
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5597 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_qccalculator/QCCalculator/2.3.0 2018-09-01 18
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5598 toolshed.g2.bx.psu.edu/repos/bebatut/cdhit/cd_hit_protein/1.3 2018-09-01 18
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5605 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MergeSamFiles/2.18.2.1 2018-09-01 17
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5638 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_textexporter/TextExporter/2.3.0 2018-09-01 14
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5731 toolshed.g2.bx.psu.edu/repos/devteam/samtools_sort/samtools_sort/2.0 2018-09-01 8
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5732 toolshed.g2.bx.psu.edu/repos/ethevenot/qualitymetrics/quality_metrics/2.2.8 2018-09-01 8
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5752 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_CollectRnaSeqMetrics/2.18.2.1 2018-09-01 7
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5790 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_SortSam/2.7.1.1 2018-09-01 5
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5792 toolshed.g2.bx.psu.edu/repos/galaxyp/peptideshaker/search_gui/2.9.0 2018-09-01 5
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5793 toolshed.g2.bx.psu.edu/repos/devteam/tabular_to_fastq/tabular_to_fastq/1.1.1 2018-09-01 5
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5794 toolshed.g2.bx.psu.edu/repos/galaxyp/msi_preprocessing/mass_spectrometry_imaging_preprocessing/1.10.0.4 2018-09-01 5
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5795 toolshed.g2.bx.psu.edu/repos/peterjc/blast2go/blast2go/0.0.9 2018-09-01 5
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5796 toolshed.g2.bx.psu.edu/repos/devteam/vcffilter/vcffilter2/0.0.3 2018-09-01 5
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5797 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_randombed/2.27.0.0 2018-09-01 5
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5798 toolshed.g2.bx.psu.edu/repos/iuc/trinity_abundance_estimates_to_matrix/trinity_abundance_estimates_to_matrix/2.8.3 2018-09-01 5
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5799 toolshed.g2.bx.psu.edu/repos/iuc/mothur_sub_sample/mothur_sub_sample/1.39.5.0 2018-09-01 5
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5800 toolshed.g2.bx.psu.edu/repos/iuc/ggplot2_heatmap2/ggplot2_heatmap2/2.2.1+galaxy1 2018-09-01 5
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5801 CONVERTER_ref_to_seq_taxomony 2018-09-01 5
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5802 toolshed.g2.bx.psu.edu/repos/devteam/xy_plot/XY_Plot_1/1.0.2 2018-09-01 5
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5803 toolshed.g2.bx.psu.edu/repos/iuc/seqtk/seqtk_mergefa/1.2.0 2018-09-01 5
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5804 toolshed.g2.bx.psu.edu/repos/devteam/cuffquant/cuffquant/2.2.1.1 2018-09-01 5
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5805 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_idmerger/IDMerger/2.2.0 2018-09-01 5
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5806 toolshed.g2.bx.psu.edu/repos/bgruening/openbabel/ctb_change_title/0.0.1 2018-09-01 5
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5807 toolshed.g2.bx.psu.edu/repos/devteam/bamtools_split/bamSplit/2.4.0 2018-09-01 5
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5808 toolshed.g2.bx.psu.edu/repos/iuc/mothur_classify_seqs/mothur_classify_seqs/1.39.5.0 2018-09-01 5
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5809 toolshed.g2.bx.psu.edu/repos/bgruening/column_arrange_by_header/bg_column_arrange_by_header/0.1 2018-09-01 5
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5810 toolshed.g2.bx.psu.edu/repos/iuc/bp_genbank2gff3/bp_genbank2gff3/1.0 2018-09-01 5
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5812 toolshed.g2.bx.psu.edu/repos/blankenberg/naive_variant_caller/naive_variant_caller/0.0.3 2018-09-01 5
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5813 toolshed.g2.bx.psu.edu/repos/devteam/fastx_quality_statistics/cshl_fastx_quality_statistics/1.0.0 2018-09-01 5
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5814 toolshed.g2.bx.psu.edu/repos/devteam/cuffmerge/cuffmerge/2.2.1.1 2018-09-01 5
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5815 toolshed.g2.bx.psu.edu/repos/iuc/ncbi_eutils_efetch/ncbi_eutils_efetch/1.1 2018-09-01 5
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5816 toolshed.g2.bx.psu.edu/repos/iuc/qiime_extract_barcodes/qiime_extract_barcodes/1.9.1.0 2018-09-01 5
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5817 foldchange_heatmap 2018-09-01 5
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5818 toolshed.g2.bx.psu.edu/repos/iuc/qiime_multiple_split_libraries_fastq/qiime_multiple_split_libraries_fastq/1.9.1.0 2018-09-01 5
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5819 toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fastq_dump/2.9.1.3 2018-09-01 4
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5820 convert_bc_to_binary_RY.py 2018-09-01 4
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5821 toolshed.g2.bx.psu.edu/repos/tgac/miranda/miranda/3.3a 2018-09-01 4
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5822 toolshed.g2.bx.psu.edu/repos/rnateam/splitfasta/rbc_splitfasta/0.2.0 2018-09-01 4
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5823 toolshed.g2.bx.psu.edu/repos/rnateam/peakachu/peakachu/0.1.0.1 2018-09-01 4
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5824 toolshed.g2.bx.psu.edu/repos/rnateam/mirdeep2/rbc_mirdeep2/2.0.0 2018-09-01 4
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5825 toolshed.g2.bx.psu.edu/repos/rnateam/mirdeep2_mapper/rbc_mirdeep2_mapper/2.0.0 2018-09-01 4
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5826 CONVERTER_gff_to_fli_0 2018-09-01 4
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5827 CONVERTER_gff_to_interval_index_0 2018-09-01 4
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5828 toolshed.g2.bx.psu.edu/repos/rnateam/blockclust/blockclust/1.0.0 2018-09-01 4
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5829 toolshed.g2.bx.psu.edu/repos/rnateam/blockbuster/blockbuster/0.1.1.1 2018-09-01 4
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5830 CONVERTER_interval_to_bigwig_0 2018-09-01 4
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5831 __DATA_FETCH__ 2018-09-01 4
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5832 flexbar_split_RR_bcs 2018-09-01 4
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5833 toolshed.g2.bx.psu.edu/repos/iuc/stringtie/stringtie_merge/1.3.4 2018-09-01 4
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5834 toolshed.g2.bx.psu.edu/repos/iuc/stringtie/stringtie/1.3.3.1 2018-09-01 4
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5835 r_correlation_matrix 2018-09-01 4
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5836 toolshed.g2.bx.psu.edu/repos/iuc/stacks_procrad/stacks_procrad/1.46.0 2018-09-01 4
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5837 toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpSift_annotate/3.4 2018-09-01 4
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5838 toolshed.g2.bx.psu.edu/repos/anton/vcfallelicprimitives/vcfallelicprimitives/0.0.1 2018-09-01 4
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5839 toolshed.g2.bx.psu.edu/repos/iuc/shovill/shovill/0.9.0 2018-09-01 4
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5840 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bam_coverage/deeptools_bam_coverage/2.4.1.0 2018-09-01 4
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5841 toolshed.g2.bx.psu.edu/repos/iuc/rgrnastar/rna_star/2.4.0d-2 2018-09-01 4
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5842 toolshed.g2.bx.psu.edu/repos/iuc/raceid_main/raceid_main/1.0.0 2018-09-01 4
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5843 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_compute_matrix/deeptools_compute_matrix/3.0.1.0 2018-09-01 4
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5844 toolshed.g2.bx.psu.edu/repos/iuc/qiime_make_phylogeny/qiime_make_phylogeny/1.9.1.0 2018-09-01 4
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5845 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_plot_heatmap/deeptools_plot_heatmap/2.5.1.1.0 2018-09-01 4
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5846 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_plot_pca/deeptools_plot_pca/3.1.2.0.0 2018-09-01 4
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5847 toolshed.g2.bx.psu.edu/repos/iuc/mothur_remove_rare/mothur_remove_rare/1.39.5.0 2018-09-01 4
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5848 toolshed.g2.bx.psu.edu/repos/iuc/mothur_remove_lineage/mothur_remove_lineage/1.39.5.0 2018-09-01 4
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5849 toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hicsummatrices/hicexplorer_hicsummatrices/2.1.2.0 2018-09-01 4
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5850 toolshed.g2.bx.psu.edu/repos/iuc/mothur_make_biom/mothur_make_biom/1.39.5.0 2018-09-01 4
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5851 toolshed.g2.bx.psu.edu/repos/iuc/mothur_list_otulabels/mothur_list_otulabels/1.39.5.0 2018-09-01 4
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5852 toolshed.g2.bx.psu.edu/repos/bgruening/nucleosome_prediction/Nucleosome/3.0 2018-09-01 4
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5917 CONVERTER_sam_to_bigwig_0 2018-09-01 3
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5918 Extract_features1 2018-09-01 3
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5919 toolshed.g2.bx.psu.edu/repos/iuc/qiime_count_seqs/qiime_count_seqs/1.9.1.0 2018-09-01 3
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5920 toolshed.g2.bx.psu.edu/repos/iuc/ncbi_eutils_ecitmatch/ncbi_eutils_ecitmatch/1.1 2018-09-01 3
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5921 toolshed.g2.bx.psu.edu/repos/wolma/mimodd_main/mimodd_convert/0.1.8_1 2018-09-01 3
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5922 toolshed.g2.bx.psu.edu/repos/devteam/emboss_5/EMBOSS: shuffleseq87/5.0.0.1 2018-09-01 3
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5923 toolshed.g2.bx.psu.edu/repos/devteam/samtools_mpileup/samtools_mpileup/2.1.4 2018-09-01 3
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5924 toolshed.g2.bx.psu.edu/repos/iuc/snpsift_dbnsfp/snpSift_dbnsfp/4.3.0 2018-09-01 3
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5925 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_compute_matrix/deeptools_compute_matrix/2.5.7.0 2018-09-01 3
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5926 smooth_running_window 2018-09-01 3
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5927 toolshed.g2.bx.psu.edu/repos/bgruening/antismash/antismash/4.1 2018-09-01 3
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5928 toolshed.g2.bx.psu.edu/repos/nick/allele_counts/allele_counts_1/1.2 2018-09-01 3
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5929 toolshed.g2.bx.psu.edu/repos/iuc/mothur_dist_shared/mothur_dist_shared/1.39.5.0 2018-09-01 2
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5930 toolshed.g2.bx.psu.edu/repos/bgruening/bismark/bismark_methylation_extractor/0.16.3 2018-09-01 2
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5931 toolshed.g2.bx.psu.edu/repos/bgruening/sailfish/sailfish/0.10.1.1 2018-09-01 2
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5932 toolshed.g2.bx.psu.edu/repos/iuc/mothur_dist_seqs/mothur_dist_seqs/1.39.5.0 2018-09-01 2
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5933 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_BamIndexStats/1.56.0 2018-09-01 2
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5934 toolshed.g2.bx.psu.edu/repos/bgruening/sklearn_model_validation/sklearn_model_validation/0.9 2018-09-01 2
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5935 toolshed.g2.bx.psu.edu/repos/devteam/picard/PicardASMetrics/1.56.0 2018-09-01 2
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5937 toolshed.g2.bx.psu.edu/repos/bgruening/sklearn_numeric_clustering/sklearn_numeric_clustering/0.9 2018-09-01 2
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5938 toolshed.g2.bx.psu.edu/repos/iuc/mothur_count_groups/mothur_count_groups/1.36.1.0 2018-09-01 2
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5939 toolshed.g2.bx.psu.edu/repos/devteam/fastx_reverse_complement/cshl_fastx_reverse_complement/1.0.0 2018-09-01 2
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5940 toolshed.g2.bx.psu.edu/repos/iuc/mothur_biom_info/mothur_biom_info/1.39.5.0 2018-09-01 2
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5941 toolshed.g2.bx.psu.edu/repos/iuc/ucsc_fasplit/fasplit/357 2018-09-01 2
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5942 toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_find_and_replace/1.1.1 2018-09-01 2
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5943 toolshed.g2.bx.psu.edu/repos/galaxyp/uniprotxml_downloader/uniprotxml_downloader/2.0.0 2018-09-01 2
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5944 toolshed.g2.bx.psu.edu/repos/devteam/scatterplot/scatterplot_rpy/1.0.0 2018-09-01 2
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5945 toolshed.g2.bx.psu.edu/repos/iuc/umi_tools_extract/umi_tools_extract/0.5.3.2 2018-09-01 2
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5946 toolshed.g2.bx.psu.edu/repos/iuc/valet/valet/1.0.0 2018-09-01 2
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5947 toolshed.g2.bx.psu.edu/repos/iuc/varscan_mpileup/varscan_mpileup/2.4.3.0 2018-09-01 2
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5948 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_ValidateSamFile/2.18.2.1 2018-09-01 2
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5949 toolshed.g2.bx.psu.edu/repos/iuc/qiime_summarize_taxa/qiime_summarize_taxa/1.9.1.0 2018-09-01 2
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5950 toolshed.g2.bx.psu.edu/repos/iuc/vegan_diversity/vegan_diversity/2.4-3 2018-09-01 2
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5951 toolshed.g2.bx.psu.edu/repos/iuc/megahit/megahit/1.1.2.2 2018-09-01 2
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5952 toolshed.g2.bx.psu.edu/repos/iuc/vsearch/vsearch_clustering/2.8.3.0 2018-09-01 2
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5954 toolshed.g2.bx.psu.edu/repos/iuc/qiime_split_libraries/qiime_split_libraries/1.9.1.0 2018-09-01 2
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5955 toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_sort_header_tool/1.1.0 2018-09-01 2
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5956 toolshed.g2.bx.psu.edu/repos/iuc/macs2/macs2_bdgpeakcall/2.1.1.20160309.0 2018-09-01 2
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5957 CONVERTER_fasta_to_len 2018-09-01 2
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5959 toolshed.g2.bx.psu.edu/repos/iuc/length_and_gc_content/length_and_gc_content/0.1.1 2018-09-01 2
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5960 toolshed.g2.bx.psu.edu/repos/devteam/fastq_stats/fastq_stats/1.0.0 2018-09-01 2
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5961 toolshed.g2.bx.psu.edu/repos/iuc/intervene/intervene_upset/0.6.4 2018-09-01 2
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5962 toolshed.g2.bx.psu.edu/repos/bgruening/wtdbg/wtdbg/1.2.8.1 2018-09-01 2
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5963 toolshed.g2.bx.psu.edu/repos/iuc/ncbi_eutils_esearch/ncbi_eutils_esearch/1.1 2018-09-01 2
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5964 toolshed.g2.bx.psu.edu/repos/bonsai/sortmerna/merged_paired_reads_wrapper/1.0 2018-09-01 2
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5966 toolshed.g2.bx.psu.edu/repos/iuc/ebi_search_rest_results/ebi_search_rest_results/0.1.1 2018-09-01 2
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5969 toolshed.g2.bx.psu.edu/repos/devteam/emboss_5/EMBOSS: tranalign100/5.0.0 2018-09-01 2
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5971 toolshed.g2.bx.psu.edu/repos/crs4/edena/edena_ovl_wrapper/0.3 2018-09-01 2
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5973 toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_plot_profile/deeptools_plot_profile/2.5.1.1.0 2018-09-01 2
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5974 toolshed.g2.bx.psu.edu/repos/devteam/varscan_version_2/varscan/2.4.2 2018-09-01 2
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5977 toolshed.g2.bx.psu.edu/repos/iuc/ggplot2_violin/ggplot2_violin/2.2.1 2018-09-01 2
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5979 toolshed.g2.bx.psu.edu/repos/iuc/ggplot2_pca/ggplot2_pca/2.2.1 2018-09-01 2
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5980 toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.5.0 2018-09-01 2
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6044 toolshed.g2.bx.psu.edu/repos/wolma/mimodd_main/mimodd_sort/0.1.8_1 2018-09-01 1
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6045 toolshed.g2.bx.psu.edu/repos/devteam/fastx_clipper/cshl_fastx_clipper/1.0.3 2018-09-01 1
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6047 toolshed.g2.bx.psu.edu/repos/devteam/fastq_manipulation/fastq_manipulation/1.1.1 2018-09-01 1
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6048 toolshed.g2.bx.psu.edu/repos/rnateam/structure_to_gspan/structure_to_gspan/0.3 2018-09-01 1
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6050 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_groupbybed/2.27.0.0 2018-09-01 1
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6051 toolshed.g2.bx.psu.edu/repos/devteam/fastq_to_tabular/fastq_to_tabular/1.1.0 2018-09-01 1
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6055 toolshed.g2.bx.psu.edu/repos/earlhaminst/replace_chromosome_names/replace_chromosome_names/0.1 2018-09-01 1
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6056 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_genomecoveragebed_histogram/2.19.0 2018-09-01 1
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6057 toolshed.g2.bx.psu.edu/repos/rnateam/mirdeep2_quantifier/rbc_mirdeep2_quantifier/2.0.0 2018-09-01 1
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6060 toolshed.g2.bx.psu.edu/repos/devteam/flanking_features/flanking_features_1/4.0.1 2018-09-01 1
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6061 toolshed.g2.bx.psu.edu/repos/earlhaminst/ete/species_tree_generator/3.0.0b35 2018-09-01 1
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6064 toolshed.g2.bx.psu.edu/repos/rnateam/graphclust_postprocessing/glob_report/0.4 2018-09-01 1
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6065 toolshed.g2.bx.psu.edu/repos/iuc/enasearch_retrieve_data/enasearch_retrieve_data/0.1.1.0 2018-09-01 1
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6069 toolshed.g2.bx.psu.edu/repos/devteam/draw_stacked_barplots/draw_stacked_barplots/1.0.0 2018-09-01 1
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6071 toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_overlapbed/2.27.0.0 2018-09-01 1
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6073 toolshed.g2.bx.psu.edu/repos/devteam/data_manager_build_kraken_database/kraken_database_builder/1.0.2 2018-09-01 1
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6075 toolshed.g2.bx.psu.edu/repos/pjbriggs/trimmomatic/trimmomatic/0.36.4 2018-09-01 1
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6077 toolshed.g2.bx.psu.edu/repos/peterjc/sample_seqs/sample_seqs/0.2.5 2018-09-01 1
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6078 toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_haplotype_caller/2.8.0 2018-09-01 1
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6080 toolshed.g2.bx.psu.edu/repos/devteam/count_gff_features/count_gff_features/0.2 2018-09-01 1
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6081 toolshed.g2.bx.psu.edu/repos/peterjc/mummer/mummerplot_wrapper/0.0.7 2018-09-01 1
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6083 toolshed.g2.bx.psu.edu/repos/iuc/gatk2/gatk2_variant_annotator/2.8.0 2018-09-01 1
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6088 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_read_duplication/2.6.4 2018-09-01 1
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6092 toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_FPKM_count/2.6.4.1 2018-09-01 1
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6108 toolshed.g2.bx.psu.edu/repos/iuc/bandage/bandage_info/0.8.1+galaxy0 2018-09-01 1
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6111 toolshed.g2.bx.psu.edu/repos/bgruening/trna_prediction/aragorn_trna/0.6 2018-09-01 1
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6126 toolshed.g2.bx.psu.edu/repos/devteam/tables_arithmetic_operations/tables_arithmetic_operations/1.0.0 2018-09-01 1
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6128 toolshed.g2.bx.psu.edu/repos/iuc/mageck_count/mageck_count/0.5.7.4 2018-09-01 1
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6129 toolshed.g2.bx.psu.edu/repos/iuc/vsearch/vsearch_chimera_detection/1.9.7.0 2018-09-01 1
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6131 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastx_wrapper/0.2.01 2018-09-01 1
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6133 toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_convert2blastmask_wrapper/0.3.0 2018-09-01 1
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6134 toolshed.g2.bx.psu.edu/repos/gbcs-embl-heidelberg/je_markdupes/je_markdupes/1.2.1 2018-09-01 1
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6135 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_decharger/Decharger/2.3.0 2018-09-01 1
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6137 toolshed.g2.bx.psu.edu/repos/devteam/fastq_quality_boxplot/cshl_fastq_quality_boxplot/1.0.1 2018-09-01 1
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6138 toolshed.g2.bx.psu.edu/repos/iuc/mothur_align_seqs/mothur_align_seqs/1.36.1.0 2018-09-01 1
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6139 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_digestor/Digestor/2.3.0 2018-09-01 1
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6143 toolshed.g2.bx.psu.edu/repos/iuc/trinity_super_transcripts/trinity_super_transcripts/2.8.3 2018-09-01 1
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6171 toolshed.g2.bx.psu.edu/repos/iuc/mothur_lefse/mothur_lefse/1.36.1.0 2018-09-01 1
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6172 toolshed.g2.bx.psu.edu/repos/iuc/mothur_make_contigs/mothur_make_contigs/1.36.1.0 2018-09-01 1
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6174 toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/sra_pileup/2.9.1.2 2018-09-01 1
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6175 toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/sam_dump/2.9.1.3 2018-09-01 1
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6176 toolshed.g2.bx.psu.edu/repos/iuc/mothur_metastats/mothur_metastats/1.36.1.0 2018-09-01 1
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6178 toolshed.g2.bx.psu.edu/repos/devteam/picard/PicardInsertSize/1.56.0 2018-09-01 1
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6180 toolshed.g2.bx.psu.edu/repos/iuc/mothur_parse_list/mothur_parse_list/1.39.5.0 2018-09-01 1
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6181 toolshed.g2.bx.psu.edu/repos/iuc/mothur_pre_cluster/mothur_pre_cluster/1.36.1.0 2018-09-01 1
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6182 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_filefilter/FileFilter/2.2.0 2018-09-01 1
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6183 toolshed.g2.bx.psu.edu/repos/iuc/sqlite_to_tabular/sqlite_to_tabular/2.0.0 2018-09-01 1
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6184 toolshed.g2.bx.psu.edu/repos/iuc/snpsift/snpsift_vartype/4.3.1 2018-09-01 1
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6185 toolshed.g2.bx.psu.edu/repos/iuc/mothur_remove_groups/mothur_remove_groups/1.36.1.0 2018-09-01 1
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6186 toolshed.g2.bx.psu.edu/repos/iuc/mothur_remove_lineage/mothur_remove_lineage/1.36.1.0 2018-09-01 1
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6188 toolshed.g2.bx.psu.edu/repos/iuc/mothur_seq_error/mothur_seq_error/1.36.1.0 2018-09-01 1
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6189 toolshed.g2.bx.psu.edu/repos/iuc/snpsift_dbnsfp_generic/snpSift_dbnsfp_generic/4.1.1 2018-09-01 1
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6190 toolshed.g2.bx.psu.edu/repos/iuc/mothur_sub_sample/mothur_sub_sample/1.36.1.0 2018-09-01 1
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6192 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MergeSamFiles/2.7.1.0 2018-09-01 1
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6194 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_qcimporter/QCImporter/2.3.0 2018-09-01 1
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6195 toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpEff_databases/4.3r.1 2018-09-01 1
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6196 toolshed.g2.bx.psu.edu/repos/iuc/mothur_summary_single/mothur_summary_single/1.36.1.0 2018-09-01 1
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6197 toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpEff_databases/4.0.0 2018-09-01 1
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6198 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_qcembedder/QCEmbedder/2.3.0 2018-09-01 1
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6199 toolshed.g2.bx.psu.edu/repos/iuc/mothur_summary_single/mothur_summary_single/1.39.5.0 2018-09-01 1
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6201 toolshed.g2.bx.psu.edu/repos/bgruening/graphmap_align/graphmap_align/0.5.2 2018-09-01 1
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6202 toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_ReorderSam/2.18.2.1 2018-09-01 1
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6203 toolshed.g2.bx.psu.edu/repos/bebatut/cdhit/cd_hit_est/1.3 2018-09-01 1
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6204 toolshed.g2.bx.psu.edu/repos/iuc/mothur_venn/mothur_venn/1.36.1.0 2018-09-01 1
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6205 toolshed.g2.bx.psu.edu/repos/galaxyp/openms_idfileconverter/IDFileConverter/2.1.0 2018-09-01 1
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6215 toolshed.g2.bx.psu.edu/repos/iuc/raceid_diffgene/raceid_diffgene/1.0.0 2018-09-01 1
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6216 toolshed.g2.bx.psu.edu/repos/iuc/qiime_assign_taxonomy/qiime_assign_taxonomy/1.9.1.0 2018-09-01 1