Groovy Map containing sample information
e.g. [ id:‘test’, single_end:false ]
bam{:bash}
:file
BAM file
*.{bam}
meta2{:bash}
:map
Groovy Map containing reference information
e.g. [ id:‘test’ ]
gtf{:bash}
:file
GTF file of the reference genome
*.{gtf}
Output
name:type
description
pattern
results{:bash}
meta{:bash}
:map
Groovy Map containing sample information
e.g. [ id:‘test’, single_end:false ]
${prefix}{:bash}
:directory
Qualimap results dir
*/*
versions_qualimap{:bash}
${task.process}{:bash}
:string
The name of the process
qualimap{:bash}
:string
The name of the tool
qualimap 2>&1 | sed -n 's/.*QualiMap v.\(.*\)/\1/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
qualimap{:bash}
:string
The name of the tool
qualimap 2>&1 | sed -n 's/.*QualiMap v.\(.*\)/\1/p'{:bash}
:eval
The expression to obtain the version of the tool
Tools
qualimap
GPL-2.0-only
Qualimap 2 is a platform-independent application written in
Java and R that provides both a Graphical User Interface and
a command-line interface to facilitate the quality control of
alignment sequencing data and its derivatives like feature counts.
