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Repository suite_deeptools
Owner: bgruening
Synopsis: deepTools: User-friendly tools for the normalization, quality control and visualization of deep-sequencing data
deepTools address the challenge of visualizing the large amounts of data that
are now routinely generated from sequencing centers in a meaningful way. To do so,
deepTools contain useful routines to process the mapped reads data through removal of
duplicates and different filtering options to create coverage files in standard
bedGraph and bigWig file formats. deepTools allow the creation of normalized
coverage files or the comparison between two files (for example, treatment and control).

Finally, using such normalized and standardized files, multiple visualizations can be
created to identify enrichments with functional annotations of the genome.
For a gallery of images that can be produced and a description of the tools see http://f1000.com/posters/browse/summary/1094053

https://github.com/deeptools/deepTools
doi: 10.1093/nar/gku365
Wikipage: https://github.com/deeptools/deepTools/wiki

Repository-Maintainer: Björn Grüning

https://github.com/deeptools/deepTools
Type: unrestricted
Revision: 29:b4d9a8d78ccf
This revision can be installed: True
Times cloned / installed: 2422
Dependencies of this repository

Repository data_manager_twobit_builder revision 625fd9476402 owned by devteam
Repository deeptools_bam_pe_fragmentsize revision 7c1beb6d6eca owned by bgruening
Repository deeptools_compute_matrix revision 9470f29702f8 owned by bgruening
Repository deeptools_plot_coverage revision 7fda5607e777 owned by bgruening
Repository deeptools_compute_gc_bias revision 56d5b797ce84 owned by bgruening
Repository deeptools_plot_profile revision a2d70c4fd406 owned by bgruening
Repository deeptools_correct_gc_bias revision ca0616bb2cdf owned by bgruening
Repository deeptools_plot_enrichment revision b1779366c8e9 owned by bgruening
Repository deeptools_plot_correlation revision fd408d755394 owned by bgruening
Repository deeptools_plot_pca revision c899e0ccff8c owned by bgruening
Repository deeptools_multi_bam_summary revision 004aea905d4d owned by bgruening
Repository deeptools_compute_matrix_operations revision 7e6bcd2e5128 owned by bgruening
Repository deeptools_alignmentsieve revision d8c919d26d0e owned by bgruening
Repository deeptools_plot_fingerprint revision 793665fff0f8 owned by bgruening
Repository deeptools_plot_heatmap revision ba6efa77fb79 owned by bgruening
Repository deeptools_bam_compare revision de72ba3ed6f2 owned by bgruening
Repository deeptools_multi_bigwig_summary revision 459cfa861f0b owned by bgruening
Repository deeptools_bam_coverage revision 12af64f93288 owned by bgruening
Repository deeptools_bigwig_compare revision a67ac707496a owned by bgruening

Categories
ChIP-seq - Tools for analyzing and manipulating ChIP-seq data.
Convert Formats - Tools for converting data formats
Sequence Analysis - Tools for performing Protein and DNA/RNA analysis
Visualization - Tools for visualizing data