Revision: 8:5d60331757d3

Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/crs4/exomedepth

Miscellaneous

Name: ExomeDepth

Description: Calls copy number variants (CNVs) from targeted sequence data

Id: exomedepth

Guid: toolshed.g2.bx.psu.edu/repos/crs4/exomedepth/exomedepth/1.1.0

Version: 1.1.0

Version command string: echo $(R --version | grep version | grep -v GNU)", ExomeDepth version" $(R --vanilla --slave -e "library(ExomeDepth); cat(sessionInfo()\$otherPkgs\$ExomeDepth\$Version)")

Display in tool panel: True

Version lineage of this tool (guids ordered most recent to oldest)

toolshed.g2.bx.psu.edu/repos/crs4/exomedepth/exomedepth/1.1.0 (this tool)

toolshed.g2.bx.psu.edu/repos/crs4/exomedepth/exomedepth/1.0.0

exomedepth

Requirements (dependencies defined in the <requirements> tag set)

Requirements:

name	version	type
r-exomedepth	1.1.10	package

Functional tests

name	inputs	outputs	required files
Test-1	targetFile: CNV_TruSeq_Chr2.bed test_vs_ref: True inputs_0|input: CNV_case_small.bam inputs_1|input: CNV_control_small.bam transition_probability: 0.5	name: value	CNV_TruSeq_Chr2.bed CNV_case_small.bam CNV_control_small.bam value