Description

Computes/Extracts the fingerprint genotype likelihoods from the supplied file. It is given as a list of PLs at the fingerprinting sites.

Input

Name (Type)
Description
Pattern

meta (file)

Input SAM/BAM/CRAM file

reference (file)

Reference sequence file

haplotype_map (file)

A file of haplotype information. The file lists a set of SNPs, optionally arranged in high-LD blocks, to be used for fingerprinting.
See https://software.broadinstitute.org/gatk/documentation/article?id=9526 for details.

*.{txt,vcf,vcf.gz}

Output

Name (Type)
Description
Pattern

fingerprint (file)

Output fingerprint file (VCF)

versions (file)

File containing software versions

versions.yml
maintainers
Github user adamrtalbot
Github user mauro-saporita
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Tools

picard
MIT

A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.

broadinstitute.github.io/picard https://github.com/broadinstitute/picard/