Group reads based on their UMI and mapping coordinates
meta
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
bam
:file
BAM file containing reads to be deduplicated via UMIs.
*.{bam}
bai
BAM index files corresponding to the input BAM file.
*.{bai}
create_bam
:boolean
Whether or not to create a read group tagged BAM file.
get_group_info
Whether or not to generate the flatfile describing the read groups, see docs for complete info of all columns
log
*.log
File with logging information
*.{log}
${prefix}.bam
a read group tagged BAM file.
${prefix}.{bam}
tsv
*.tsv
Flatfile describing the read groups, see docs for complete info of all columns
*.{tsv}
versions_umitools
${task.process}
:string
The name of the process
umitools
The name of the tool
umi_tools --version | sed 's/UMI-tools version: //'
:eval
The expression to obtain the version of the tool
versions
UMI-tools contains tools for dealing with Unique Molecular Identifiers (UMIs)/Random Molecular Tags (RMTs) and single cell RNA-Seq cell barcodes
