Find SA coordinates of the input reads for bwa short-read mapping
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
reads{:bash}
:file
List of input FastQ files of size 1 and 2 for single-end and paired-end data, respectively.
meta2{:bash}
Groovy Map containing reference information. e.g. [ id:‘test’, single_end:false ]
index{:bash}
BWA genome index files
Directory containing BWA index *.{amb,ann,bwt,pac,sa}
sai{:bash}
*.sai{:bash}
Single or paired SA coordinate files
*.sai
versions_bwa{:bash}
${task.process}{:bash}
:string
The process the versions were collected from
bwa{:bash}
The tool name
bwa 2>&1 | sed -n "s/^Version: //p"{:bash}
The command used to generate the version of the tool
versions{:bash}
BWA is a software package for mapping DNA sequences against a large reference genome, such as the human genome.
