Groovy Map containing sample information
e.g. [ id:‘test’, single_end:false ]
bam
:file
List of BAM/SAM files
*.{bam,sam}
Output
name:type
description
pattern
bam
meta
:map
Groovy Map containing sample information
e.g. [ id:‘test’, single_end:false ]
output/**.{bam,sam}
:file
List of split BAM/SAM files
*.{bam,sam}
versions_elprep
${task.process}
:string
The name of the process
elprep
:string
The name of the tool
elprep 2>&1 | sed -n '2s/^.*version //;s/ compiled.*$//p'
:eval
The expression to obtain the version of the tool
Topics
name:type
description
pattern
versions
${task.process}
:string
The name of the process
elprep
:string
The name of the tool
elprep 2>&1 | sed -n '2s/^.*version //;s/ compiled.*$//p'
: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.
