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jotech / gapseq

Informed prediction and analysis of bacterial metabolic pathways and genome-scale networks
GNU General Public License v3.0
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Some input files already annotated #137

Closed Kisekya closed 1 year ago

Kisekya commented 2 years ago

Hello @jotech , Thank you for your work! I have a question about the format of the input sequence. I have some genomes already annotated and some not. For the unannotated ones I think there will be no worries. But for others, does the previous annotation pose a problem for the gapseq construction for my metabolic networks?

Best regards, Kisekya

jotech commented 2 years ago

Hi @Kisekya I think there will be no problem; gapseq works fine with nucleotide fasta files unless you want to use the annotation in gapseq. Is it what you want to do?

Waschina commented 1 year ago

Just a small additional note: gapseq now also accepts multi-protein fasta files as genome input. You can find an example here: https://github.com/jotech/gapseq/issues/132#issuecomment-1263657262

Waschina commented 1 year ago

Please re-open if the question/issue still exists.