modules/
agat_spflagshortintrons

The script flags the short introns with the attribute . Is is usefull to avoid ERROR when submiting the data to EBI. (Typical EBI error message: ****ERROR: Intron usually expected to be at least 10 nt long. Please check the accuracy)

genomics gtf gff intron short annotation

https://github.com/nf-core/modules/tree/master/modules/nf-core/agat/spflagshortintrons

Description

Input

Name

Description

Pattern

`0` ()

`1` ()

`config` (file)

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).

*.{yaml}