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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.