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FLATTENGTF(1) User Commands FLATTENGTF(1)

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.
January 2019 flattenGTF 1.6.3+dfsg