Entering edit mode
23 months ago
First install AGAT:
conda create -c bioconda -n agat agat conda activate agat
Then enjoy possibilities of
agat_sp_extract_sequences.pl, below exemplified
GFF corresponding to the record used as reference:
A great toolkit in Perl, kudos for that!
I assume this retrieves the sequence, but I was wondering if it's possible to retrieve an annotated version of the sequence, for example, in Genbank format, where the introns and exons are mapped. I would find that extremely useful.
By the way. thank you for creating AGAT, it has saved me many headaches when using GFF files!