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NBISweden / AGAT

Another Gtf/Gff Analysis Toolkit
GNU General Public License v3.0
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agat_sp_filter_feature_from_keep_list.pl keeps all mRNA records instead of just the selected #370

Closed sanyalab closed 11 months ago

sanyalab commented 1 year ago

Hi Jacques,

I used the agat_sp_filter_feature_from_keep_list.pl tool to extract records pertaining to specific mRNA using the following command

agat_sp_filter_feature_from_keep_list.pl --gff Ref.gff --keep_list te1.lst --type mRNA

The file te1.lst contains a a single mRNA ID G1.2. However, on running this script the output has both G1.1 and G1.2. I want just G1.2. How can I achieve that?

Thanks Abhijit

Juke34 commented 1 year ago

This is intended by the script, it kept the whole record. To remove part of a record like in your case an isoforms you have to do the other way around using the kill list script with G1.1 in the list