Question

How to convert GFF3 file into tbl file

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3.7 years ago

anasofiamoreira94 ▴ 80

Hello, I'm using python, and I want to convert a GFF3 file to a tbl file, so that I can complete a genbank submission. Can someone please help me? Thanks

python • 1.6k views

ADD COMMENT • link updated 3.7 years ago by lieven.sterck 15k • written 3.7 years ago by anasofiamoreira94 ▴ 80

score 0 · Answer 1 · 2021-05-04

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3.7 years ago

lieven.sterck 15k

have a look at the AGAT toolkit. There surely will be a tool in it to do this.

AGAT - Another Gff/Gtf Analysis Toolkit

ADD COMMENT • link 3.7 years ago by lieven.sterck 15k

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I converted a genbank file into a GFF3 file, because I thought it was easier. Do you think I should convert the file from genbank to tbl file instead? Thanks

ADD REPLY • link 3.7 years ago by anasofiamoreira94 ▴ 80

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I usually submit my data to ENA so not familiar with the approach for NCBI but any intermediate step you can eliminate is less change to introduce error and such.

there is quite well procedure described at the NCBI submission website : https://www.ncbi.nlm.nih.gov/genbank/submit/

ADD REPLY • link 3.7 years ago by lieven.sterck 15k