Description

Uses f1r2 counts collected during mutect2 to Learn the prior probability of read orientation artifacts

Input

name:type
description
pattern

meta:map

Groovy Map containing sample information e.g. [ id:‘test’ ]

f1r2:list

list of f1r2 files to be used as input.

*.f1r2.tar.gz

Output

name:type
description
pattern

artifactprior

meta:file

file containing artifact-priors to be used by filtermutectcalls

*.tar.gz

*.tar.gz:file

file containing artifact-priors to be used by filtermutectcalls

*.tar.gz

versions

versions.yml:file

File containing software versions

versions.yml

Tools

gatk4
Apache-2.0

Developed in the Data Sciences Platform at the Broad Institute, the toolkit offers a wide variety of tools with a primary focus on variant discovery and genotyping. Its powerful processing engine and high-performance computing features make it capable of taking on projects of any size.