Xinpeng Zhang

icon company University of Nebraska-Lincoln icon location Graduate Student icon location Bioinformatics third Ph.D. student at the University of Nebraska-Lincoln.

Results 8 issues of Xinpeng Zhang

Errors in using gff and faa file

1 comment

Hi! I met a problem when I want to compare two gff3 files: [04:44:40] INFO - PUL0611.gff [04:44:40] WARNING - Found no CDS features in ED556_00425 [PUL0611.gff] [04:44:40] WARNING -...

Update utils.py

Revised bug from issue by Jinfang

Bugs for protein input

1 comment

@prihoda Hi! I may find a bug that: The output file (*.bgc.tsv) does not have "protein_ids bio_pfam_ids pfam_ids" (empyt), no matter use protein file (--protein ) or change the protein...

Could deepBGC be used for special gene clusters?

I want to use my own data to train deepBGC, because I want to find a specific BGC, but I have problems in the process of training, because all Gene...

Questions about the application of COBRA

2 comment

Dear Linxing, Good afternoon. Thank you for this excellent paper and tool! I read this paper and shared it with my lab members. I have some questions about the application...

Error for using conda install

Hi, Thank you for providing such a great tool! I'm trying to use bioconda to install it and it succeed, however, when I tried to run the tool it gave...

Update run_dbcan.py

Fixed cgc.gff generation issue in protein mode: Keep the CDS in the gff file.

Request for tutorial of ESM-C

Hi, Thank you for changing the license of ESM-C! I want to ask if it is possible to launch an ESM-C jupyter to provide some examples and introductions. I saw...