Pacbio ccs - Generate Highly Accurate Single-Molecule Consensus Reads
meta
:map
Groovy Map containing sample information id: id of the split file
bam
:file
Raw subreads bam
*.subreads.bam
pbi
Pacbio BAM Index
*.pbi
chunk_num
:integer
BAM part to process
chunk_on
Total number of bam parts to process
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
*.chunk*.bam
CCS sequences in bam format
*.bam
*.chunk*.bam.pbi
PacBio Index of CCS sequences
report_txt
*.report.txt
CCS report in text format
report_json
*.report.json
CCS report in JSON format
metrics
*.metrics.json.gz
Metrics about zmws
*.json.gz
versions_pbccs
${task.process}
:string
The name of the process
pbccs
The name of the tool
ccs --version 2>&1 | sed '1!d;s/^.*ccs //; s/ .*//'
:eval
The expression to obtain the version of the tool
versions
pbccs - Generate Highly Accurate Single-Molecule Consensus Reads (HiFi Reads)
