Description

Uses FGBIO CallDuplexConsensusReads to call duplex consensus sequences from reads generated from the same double-stranded source molecule.

Input

name:type
description
pattern

meta:map

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

grouped_bam:file

Grouped BAM file

*.bam

min_reads:string

Minimum number of raw/original reads to build each consensus read. Can be a space delimited list of 1-3 values. See fgbio documentation for more details.

min_baseq:integer

Ignore bases in raw reads that have Q below this value

Output

name:type
description
pattern

bam

meta:map

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

${prefix}.bam:file

consensus BAM file

*.bam

versions

versions.yml:file

File containing software versions

versions.yml

Tools

included in
radseq
maintainer
Github user lescai
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