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Repository coverage_report
Name: coverage_report
Owner: geert-vandeweyer
Synopsis: Generate Detailed Coverage Report from BAM file
Generate Coverage reports for Gene Panel data, including per gene and per exon plots. Uses a bam file and assay file (BED). Also usable for WES data, for a global overview of assay performance : % captured,  on/off target, median coverage, % 0.2*Average coverage etc. 
Link to this repository: https://toolshed.g2.bx.psu.edu/view/geert-vandeweyer/coverage_report/576bfc1586f9
Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/geert-vandeweyer/coverage_report
Type: unrestricted
Revision: 27:576bfc1586f9
This revision can be installed: True
Times cloned / installed: 943
Dependencies of this repository

Repository dependencies - installation of these additional repositories is required
Repository package_readline_6_2 revision 5313ca2fbce6 owned by iuc (prior install required)
Repository package_libpng_1_6_7 revision 3de32cd300a9 owned by devteam (prior install required)
Repository package_cairo_1_12_14 revision cd2ed5717e38 owned by devteam (prior install required)
Repository package_pixman_0_32_4 revision 93cd8e03820c owned by devteam (prior install required)
Repository package_freetype_2_5_2 revision a65217367e4a owned by devteam (prior install required)
Repository package_ncurses_5_9 revision 335ebf512407 owned by iuc (prior install required)
Repository package_pixman_0_32_4 revision 93cd8e03820c owned by devteam (prior install required)
Repository package_libpng_1_6_7 revision 3de32cd300a9 owned by devteam (prior install required)
Repository package_freetype_2_5_2 revision a65217367e4a owned by devteam (prior install required)
Repository package_fontconfig_2_11_1 revision d88d844df0cb owned by iuc (prior install required)
Repository package_libpng_1_6_7 revision 3de32cd300a9 owned by devteam (prior install required)
Repository package_libpng_1_6_7 revision 3de32cd300a9 owned by devteam (prior install required)
Repository package_freetype_2_5_2 revision 1e86d1cf79a4 owned by iuc (prior install required)
Repository package_libxml2_2_9_1 revision 45b16a3ab504 owned by iuc (prior install required)
Repository package_zlib_1_2_8 revision 411985b46ae8 owned by iuc (prior install required)
Repository package_libpng_1_6_7 revision 588666932a32 owned by iuc (prior install required)
Repository package_zlib_1_2_8 revision 411985b46ae8 owned by iuc (prior install required)
Repository package_bedtools_2_18_2 revision 35905f2ae9f4 owned by geert-vandeweyer
Repository package_samtools_0_1_18 revision 171cd8bc208d owned by devteam

Tool dependencies - repository tools require handling of these dependencies
Name Version Type
R 3.0.3 package
bedtools 2.18.2 package
samtools 0.1.18 package

Contents of this repository

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Name Description Version Minimum Galaxy Version
0.0.3 16.01

Categories
Genomic Interval Operations - Tools for operating on genomic intervals
Graphics - Tools producing images
Statistics - Tools for generating statistics