NAME

       filtergtf - filter a gtf annotation file for use with bamfeaturecount

SYNOPSIS

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

DESCRIPTION

       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

AUTHOR

       Written by German Tischler-Höhle.

REPORTING BUGS

       Report bugs to <germant@miltenyibiotec.de>

COPYRIGHT

       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.