NAME

       flattenGTF  -  Flatten  features  included  in a GTF annotation and save the modified annotation to a SAF
       format file.

USAGE

       flattenGTF [options] -a <input_file> -o <output_file>

       ## Mandatory arguments:

       -a <file>
              Name of an annotation file in GTF/GFF format.

       -o <file>
              Name of output file.

       ## Optional arguments:

       -t <string>
              Specify feature type in a GTF annotation. 'exon' by default.  Features with the specified  feature
              type are extracted from the annotation for processing.

       -g <string>
              Specify  attribute  type  in GTF annotation. 'gene_id' by default.  This attribute type is used to
              group features into metafeatures.

       -C     Merging overlapping exons into multiple non-overlapping exons but all the edges are kept.

flattenGTF 2.0.0+dfsg                            September 2019                                    FLATTENGTF(1)