Mmseqs profiles for speed up

takaram / kofam_scan

CLI tool to annotate genes with KOfam

https://www.genome.jp/tools/kofamkoala/

MIT License

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Mmseqs profiles for speed up #11

Open SilasK opened 4 years ago

SilasK commented 4 years ago

Dear @takaram Do you think it would be possible to make a mmseqs2 implementation of kofam_scan. mmseqs2 profiles work analogous to hmmer profiles but should be 300 times faster.

I can help with the implementation.

What do you think?

cmkobel commented 1 year ago

Did anyone implement this in a fork? Or does anyone have a script that works analogously to kofam_scan?

SilasK commented 1 year ago

No response from the developer since three years is probably to be interpreted as a No.

SilasK commented 1 year ago

We would need the original alignments, that's all..