Extracts splicing sites from a gtf files
meta{:bash}
:map
Groovy Map containing reference information e.g. [ id:‘genome’ ]
gtf{:bash}
:file
Reference gtf annotation file
*.{gtf}
txt{:bash}
*.splice_sites.txt{:bash}
Splice sites in txt file
*.txt
versions_hisat2{:bash}
${task.process}{:bash}
:string
The process the versions were collected from
hisat2{:bash}
The tool name
hisat2 --version | grep -o "version [^ ]*" | cut -d " " -f 2{:bash}
:eval
The expression to obtain the version of the tool
versions{:bash}
HISAT2 is a fast and sensitive alignment program for mapping next-generation sequencing reads (both DNA and RNA) to a population of human genomes as well as to a single reference genome.
