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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: 2132
Dependencies of this repository

Repository data_manager_twobit_builder revision 625fd9476402 owned by devteam
Repository deeptools_bam_pe_fragmentsize revision 3f9dc453c0e8 owned by bgruening
Repository deeptools_compute_matrix revision 19bb3e6d9e31 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 e9429e484e25 owned by bgruening
Repository deeptools_correct_gc_bias revision 00a71ff7c06b owned by bgruening
Repository deeptools_plot_enrichment revision 88ce7fed1488 owned by bgruening
Repository deeptools_plot_correlation revision e44978659400 owned by bgruening
Repository deeptools_plot_pca revision 7784523d9743 owned by bgruening
Repository deeptools_multi_bam_summary revision b4e53394fced owned by bgruening
Repository deeptools_compute_matrix_operations revision be95d48dd27f owned by bgruening
Repository deeptools_alignmentsieve revision e5a296ce8fbb owned by bgruening
Repository deeptools_plot_fingerprint revision ca8a7f0ea872 owned by bgruening
Repository deeptools_plot_heatmap revision 42cb23d80271 owned by bgruening
Repository deeptools_bam_compare revision c89b665b45e4 owned by bgruening
Repository deeptools_multi_bigwig_summary revision 459cfa861f0b owned by bgruening
Repository deeptools_bam_coverage revision 4df95152a39e owned by bgruening
Repository deeptools_bigwig_compare revision 7989c6ddf634 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