agat_sp_list_short_introns.pl

DESCRIPTION

The script aims to list all the introns inferior to a certain size. Introns are calculated on the fly from exons. (intron feature will not be used).

SYNOPSIS

agat_sp_list_short_introns.pl --gff infile [ --out outFile ]
agat_sp_list_short_introns.pl --help

OPTIONS

• --gff, -f, --ref or -reffile

  Input GTF/GFF file.

• --size or -s

  Minimum intron size accepted in nucleotide. All introns under this size will be reported. Default value = 10.

• --out, --output or -o

  Output gff3 file where the gene incriminated will be write.

• --help or -h

  Display this helpful text.