David Příhoda

Hi @LLei2, thanks for reporting this. Looks like an issue with ANARCI numbering, our IGKV2-30*01 sequence is identical to GENE-DB but it gets scrambled during grafting. We'll look into this.

Ok, this seems like an ANARCI issue indeed. I fixed it on the public server by installing an older version of ANARCI: `conda install anarci==2020.04.23`. Can you try submitting at...

Great, thanks. Closing this now, since it seems like an ANARCI issue. I submitted an issue report to the ANARCI repo: https://github.com/oxpig/ANARCI/issues/17 BioPhi will now require ANARCI version from 2020...

Hi @susheelbhanu, are you able to share the input file and the input command you are using?

Ok, this seems to be caused by incompatible PFAM_domain annotations in the GenBank file. Can you turn this into a nucleotide FASTA and run `deepbgc pipeline` on that? This will...

Hi @esraagithub, your file `sample1_deepbgc_prepare_result.tsv` contains the BGC samples, is that correct? This file will need to contain an `in_cluster` column, which will have a value of `1` in all...

Hi @esraagithub if that file contains just BGC samples, you can manually change the value to 1 in all rows

Hi @NiklausChung thanks for reporting this. We fixed the protobuf dependency version, please try reinstalling deepbgc into a new environment. Or this might do the same trick: `conda update deepbgc`

Should now be fixed in new deepbgc version on bioconda

Hi @yangziyi1990, there are two separate models - one for pfam2vec that turns pfam IDs into meaningful vectors (based on word2vec), and one for BGC detection using a sequence of...