Perform HLA-I typing of sequencing data
meta
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
bam
:file
BAM file
*.{bam}
bai
BAM index file
*.{bai}
hla_type
Groovy Map containing sample information e.g. [ id:‘test’, seq_type:‘DNA’ ]
${prefix}/*.tsv
HLA type
coverage_plot
${prefix}/*.pdf
OptiType coverage plot
versions_optitype
${task.process}
:string
The name of the process
optitype
The name of the tool
grep "Version:" $(which OptiTypePipeline.py) | sed "s/Version: //g"
:eval
The expression to obtain the version of the tool
versions
Precision HLA typing from next-generation sequencing data
