| DepthOfCoverage processes a set of bam files to determine coverage at different levels of partitioning and aggregation. Coverage can be analyzed per locus, per interval, per gene, or in total; can be partitioned by sample, by read group, by technology, by center, or by library; and can be summarized by mean, median, quartiles, and/or percentage of bases covered to or beyond a threshold. Additionally, reads and bases can be filtered by mapping or base quality score. |
hg clone https://toolshed.g2.bx.psu.edu/repos/devteam/depth_of_coverage
| Repository package_gatk_1_4 revision ec95ec570854 owned by devteam |
| Repository package_samtools_0_1_18 revision 171cd8bc208d owned by devteam |
| Name | Version | Type | |
|---|---|---|---|
| gatk | 1.4 | package | |
| samtools | 0.1.18 | package | |
| Name | Description | Version | Minimum Galaxy Version |
|---|---|---|---|
| on BAM files | 0.0.2 | any | |