Fixes and standardizes GFF/GTF files and outputs a cleaned GFF/GTF file
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
gxf{:bash}
:file
Annotation file in GFF3/GTF format
*.{gff, gtf}
output_gff{:bash}
Groovy Map containing sample information
*.agat.gff{:bash}
Cleaned annotation file in GFF3 format
*.{gff}
versions_agat{:bash}
${task.process}{:bash}
:string
The name of the process
agat{:bash}
The name of the tool
agat --version | sed 's/v//'{:bash}
:eval
The expression to obtain the version of the tool
versions{:bash}
AGAT is a toolkit for manipulation and getting information from GFF/GTF files
