filtergtf - filter a gtf annotation file for use with bamfeaturecount

       Written by German Tischler-Höhle.

       Copyright © 2009-2019 German Tischler-Höhle, © 2011-2014 Genome Research Limited.   License  GPLv3+:  GNU
       GPL version 3 <http://gnu.org/licenses/gpl.html>
       This  is  free software: you are free to change and redistribute it.  There is NO WARRANTY, to the extent
       permitted by law.

BIOBAMBAM                                          August 2019                                      FILTERGTF(1)

       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

       filtergtf - filter a gtf annotation file for use with bamfeaturecount

       Report bugs to <germant@miltenyibiotec.de>

filtergtf<in.gtf>out.gtf [options]