Trim primer sequences rom a BAM file with iVar
meta
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
bam
:file
Co-ordinate sorted BAM file
*.bam
bai
Index file for co-ordinate sorted BAM file
*.bai
bed
BED file with primer labels and positions
*.bed
iVar generated trimmed bam file (unsorted)
log
*.log
Log file generated by iVar for use with MultiQC
versions_ivar
${task.process}
:string
The name of the process
ivar
The name of the tool
ivar version | sed -n 's|iVar version \(.*\)|\1|p'
:eval
The expression to obtain the version of the tool
versions
iVar - a computational package that contains functions broadly useful for viral amplicon-based sequencing.
