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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: 32:3b186bb21219
This revision can be installed: True
Times cloned / installed: 2265
Dependencies of this repository

Repository deeptools_bam_pe_fragmentsize revision c06951d10364 owned by bgruening
Repository deeptools_estimatereadfiltering revision c72a755904a9 owned by bgruening
Repository deeptools_compute_matrix revision a60c359ec43c owned by bgruening
Repository deeptools_plot_coverage revision 231994413f89 owned by bgruening
Repository deeptools_compute_gc_bias revision 26983857c91a owned by bgruening
Repository deeptools_plot_profile revision 6662b1a8d326 owned by bgruening
Repository deeptools_correct_gc_bias revision e479c7ca5570 owned by bgruening
Repository deeptools_plot_enrichment revision 4431f39ede55 owned by bgruening
Repository deeptools_plot_correlation revision bad3ca889618 owned by bgruening
Repository deeptools_bigwig_average revision 4a53856a5b85 owned by bgruening
Repository deeptools_plot_pca revision 443d9a9d6d11 owned by bgruening
Repository deeptools_multi_bam_summary revision 01fb6a7654e6 owned by bgruening
Repository deeptools_compute_matrix_operations revision e6d0bff01239 owned by bgruening
Repository deeptools_alignmentsieve revision 97b384b7bfb0 owned by bgruening
Repository deeptools_plot_fingerprint revision 4ed32329e0ed owned by bgruening
Repository deeptools_plot_heatmap revision e4c7985d4585 owned by bgruening
Repository deeptools_bam_compare revision c929a006727f owned by bgruening
Repository deeptools_multi_bigwig_summary revision 137c4beed34b owned by bgruening
Repository deeptools_bam_coverage revision 0e49b109abc2 owned by bgruening
Repository deeptools_bigwig_compare revision 07418a30ed01 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