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AstrobioMike / bit

Bioinformatics Tools
GNU General Public License v3.0
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Feature request - Ability to download gene nucleotide sequences when using `bit-dl-ncbi-assemblies` #15

Closed Sidduppal closed 1 year ago

Sidduppal commented 1 year ago

Hey @AstrobioMike thanks for this amazing tool. I have a small feature request. I was wondering if it will be possible to update bit-dl-ncbi-assemblies where it can be used to download nucleotide sequences of genes (basically ffn files). Currently, bit-dl-ncbi-assemblies doesn't support the download of ffn (gene sequences in nucleotide format) but allows the download of faa files (gene sequences in amino acid format). I'm happy to help in any way I can. Thanks

AstrobioMike commented 1 year ago

Hi there, @Sidduppal!

Thanks for the request, can for sure add it if needed!

Not entirely sure which you mean right now though, can you tell me which for example from this page?

We can already get the "*_cds_from_genomic.fna.gz" by specifying -f nt_cds, but are you referring to another one available there?

Thanks!

AstrobioMike commented 1 year ago

oh and i'll note that was only added as of the latest version, v1.8.61, so maybe you have an older version which might be why you missed it if that is what is wanted :)

Sidduppal commented 1 year ago

Hi @AstrobioMike

Looks like I was living in the past with an older version! Thanks for pointing that out and for your quick response. Much appreciated!

AstrobioMike commented 1 year ago

Awesome, thanks @Sidduppal!