NAME

       rsem-gff3-to-gtf - Convert GFF3 files to GTF files.

DESCRIPTION

       usage: rsem-gff3-to-gtf [-h] [--make-genes-as-transcripts]

       [--RNA-patterns <patterns>]
              [--extract-sequences <output.fa>] input_GFF3_file output_GTF_file

       Convert GFF3 files to GTF files.

   positional arguments:
       input_GFF3_file
              Input GFF3 file.

       output_GTF_file
              Output GTF file.

   optional arguments:
       -h, --help
              show this help message and exit

       --make-genes-as-transcripts
              GFF3 file does not contain transcripts, make each gene as a transcript. (default: False)

       --RNA-patterns <patterns>
              Types of RNAs to be extracted, e.g. mRNA,rRNA (default: None)

       --extract-sequences <output.fa>
              If GFF3 file contains reference sequences, extract them to the specified file (default: None)