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 (file)

file containing artifact-priors to be used by filtermutectcalls

*.tar.gz

versions (file)

File containing software versions

versions.yml
included in
rnadnavar sarek
maintainer
Github user GCJMackenzie
get in touch
Ask a question on Slack Open an issue on GitHub

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.

gatk.broadinstitute.org/hc/en-us gatk.broadinstitute.org/hc/en-us/categories/360002369672s 10.1158/1538-7445.AM2017-3590