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Repository deeptools_alignmentsieve
Owner: bgruening
Synopsis: Wrapper for the deepTools: alignmentsieve
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
doi: 10.1093/nar/gku365

Repository-Maintainer: Björn Grüning
Type: unrestricted
Revision: 13:97b384b7bfb0
This revision can be installed: True
Times cloned / installed: 1337

Contents of this repository

Name Description Version Minimum Galaxy Version
Filter BAM/CRAM files according to specified parameters 3.5.4+galaxy0 22.05

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