Groovy Map containing sample information
e.g. [ id:‘test’, single_end:false ]
bam{:bash}
:file
List of BAM/SAM files
*.{bam,sam}
Output
name:type
description
pattern
bam{:bash}
meta{:bash}
:map
Groovy Map containing sample information
e.g. [ id:‘test’, single_end:false ]
output/**.{bam,sam}{:bash}
:file
List of split BAM/SAM files
*.{bam,sam}
versions_elprep{:bash}
${task.process}{:bash}
:string
The name of the process
elprep{:bash}
:string
The name of the tool
elprep 2>&1 | sed -n '2s/^.*version //;s/ compiled.*$//p'{:bash}
:eval
The expression to obtain the version of the tool
Topics
name:type
description
pattern
versions{:bash}
${task.process}{:bash}
:string
The name of the process
elprep{:bash}
:string
The name of the tool
elprep 2>&1 | sed -n '2s/^.*version //;s/ compiled.*$//p'{:bash}
:eval
The expression to obtain the version of the tool
Tools
elprep
AGPL v3
elPrep is a high-performance tool for preparing .sam/.bam files for variant calling in sequencing pipelines. It can be used as a drop-in replacement for SAMtools/Picard/GATK4.
