filtergtf1
Filter a gtf annotation file for use with bamfeaturecount
Usage
filtergtf <
in.gtf
>
out.gtf
[options]
Overview
filtergtf filters GTF files for use with bamfeaturecount. It reads a GTF file from standard input, removes information not required by bamfeaturecount, constructs the line order as expected by bamfeaturecount (lines for a gene_id collated, gene line first, transcript line directly before their respective exon lines) and writes the resulting GTF file to standard output.
The following key=value pairs can be given:
T=<filename>: set the prefix for temporary file names