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nf-core/picard/extractfingerprint @ 0.0.0-6c4ed3a

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

picard extract fingerprint bam
Latest version: 0.0.0-6c4ed3a
Total downloads: 5
Source: nf-core/modules
Authors: @adamrtalbot @mauro-saporita
Maintainers: @adamrtalbot @mauro-saporita

Summary

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

Get started

Add the following snippet to your workflow script to include this module.

include { PICARD_EXTRACTFINGERPRINT } from 'nf-core/picard/extractfingerprint'

License

MIT License

Process
Name PICARD_EXTRACTFINGERPRINT
Input 5 channels
#1 tuple
meta file

Input SAM/BAM/CRAM file
bam file

BAM file

 *.{bam}
bai file

BAM index file

 *.{bai}
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}
fasta file

Reference sequence file

 *.{fasta,fna,fa}
fasta_fai file

Reference sequence index file

 *.{fai}
sequence_dictionary file

Reference sequence dictionary file
Output 3 channels
#1 tbi tuple
meta map

Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ]
*.vcf.gz.tbi file

Tabix index file

 *.vcf.gz.tbi
#2 vcf tuple
meta map

Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ]
*.vcf.gz file

VCF file

 *.vcf.gz
#3 versions_picard tuple
${task.process} string

The process the versions were collected from
picard string

The tool name
picard ExtractFingerprint --version 2>&1 | sed -n 's/.*Version://p' string

The command used to generate the version of the tool
Tool Description Homepage
picard A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF. https://broadinstitute.github.io/picard/
Version 0.0.0-6c4ed3a
Commit ID 6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date 23 Apr 2026 15:36:04 (UTC)
Download URL https://registry.nextflow.io/api/v1/modules/nf-core%2Fpicard%2Fextractfingerprint/0.0.0-6c4ed3a/download
OCI Store URL https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/picard/extractfingerprint/blobs/sha256:0fee0caef3bd893f1af20cb42ab0447d97bc81d780a6cd009aff18716e8f78df
Size 3.2 KB
Checksum sha256:0fee0caef3bd893f1af20cb42ab0447d97bc81d780a6cd009aff18716e8f78df
Downloads 3
Version Date Status Downloads Size
0.0.0-6c4ed3a 23 Apr 2026 15:36:04 (UTC) 3 3.2 KB
0.0.0-0c7146d 08 Apr 2026 19:25:42 (UTC) 2 3.2 KB
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