Repository count_covariates
Name: count_covariates
Owner: devteam
Synopsis: Count Covariates on BAM files
This calculation is critically dependent on being able to skip
over known variant sites. Please provide a dbSNP ROD or a VCF file containing known
sites of genetic variation.
However, if you do not provide this file, the ''--run_without_dbsnp_potentially_ruining_quality''
flag will be automatically used, and the command will be allowed to run.
Content homepage: https://www.broadinstitute.org/gatk/
Development repository: https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/gatk/count_covariates
Link to this repository: https://toolshed.g2.bx.psu.edu/view/devteam/count_covariates/14e304b70425
Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/devteam/count_covariates
Type: unrestricted
Revision: 0:14e304b70425
This revision can be installed: True
Times cloned / installed: 2760
Dependencies of this repository

Repository dependencies - installation of these additional repositories is required
Repository package_gatk_1_4 revision ec95ec570854 owned by devteam
Repository package_samtools_0_1_18 revision 171cd8bc208d owned by devteam

Tool dependencies - repository tools require handling of these dependencies
Name Version Type
gatk 1.4 package
samtools 0.1.18 package

Contents of this repository

Valid tools - click the name to preview the tool and use the pop-up menu to inspect all metadata
Name Description Version Minimum Galaxy Version
on BAM files 0.0.5 any

Categories
Sequence Analysis - Tools for performing Protein and DNA/RNA analysis