Groovy Map containing sample information
e.g. [ id:‘test’, single_end:false ]
bams
:file
BAM files containing mapped reads
*.bam
annotation
:file
Genomic features annotation in GTF or SAF
*.{gtf,saf}
Output
name:type
description
pattern
counts
meta
:map
Groovy Map containing sample information
e.g. [ id:‘test’, single_end:false ]
*featureCounts.tsv
:file
Counts of reads mapping to features
*featureCounts.tsv
summary
meta
:map
Groovy Map containing sample information
e.g. [ id:‘test’, single_end:false ]
*featureCounts.tsv.summary
:file
Summary log file
*.featureCounts.tsv.summary
versions_subread
${task.process}
:string
The name of the process
subread
:string
The name of the tool
featureCounts -v 2>&1 | sed 's/featureCounts v//'
:eval
The expression to obtain the version of the tool
Topics
name:type
description
pattern
versions
${task.process}
:string
The name of the process
subread
:string
The name of the tool
featureCounts -v 2>&1 | sed 's/featureCounts v//'
:eval
The expression to obtain the version of the tool
Tools
featurecounts
GPL v3
featureCounts is a highly efficient general-purpose read summarization program that counts mapped reads for genomic features such as genes, exons, promoter, gene bodies, genomic bins and chromosomal locations. It can be used to count both RNA-seq and genomic DNA-seq reads.
