agat_sp_split_by_level2_feature.pl

DESCRIPTION

The script will split the gff input file into different files according to the different Level2 feature that it contains.

SYNOPSIS

agat_sp_split_by_level2_feature.pl -g infile.gff [ -o outfolder ]
agat_sp_split_by_level2_feature.pl --help

OPTIONS

• -g, --gff or -ref

  Input GTF/GFF file.

• -o or --output

  Output folder. If no output folder provided, the default name will be <split_result>.

• -c or --config

  String - Input agat config file. By default AGAT takes as input agat_config.yaml file from the working directory if any, otherwise it takes the orignal agat_config.yaml shipped with AGAT. To get the agat_config.yaml locally type: "agat config --expose". The --config option gives you the possibility to use your own AGAT config file (located elsewhere or named differently).

• -h or --help

  Display this helpful text.