psp3dcg

Results 5 comments of psp3dcg

ImportError: cannot import name 'SCOPData' from 'Bio.Data'

> Hi I am new to codes but I would like to use Alphafold to predict some of my proteins. I met the same problem. I used the same software...

Does the template searching result contain query sequence's structure or not?

I usually use MSA generated by hhblits as input for hhsearch.

What's the location of the trained model when generating a sample from given MSA

OK, thank you for the reply~

What's the location of the trained model when generating a sample from given MSA

> Hi @psp3dcg, I saw you reopened this. Anything else I can do here? Oh, yes. I want to ask the name of protein families you used during the training...

test

> 他的教程确实写得不太清楚，我跑通了一遍大概是：输入是tsv格式的序列文件，用do_embedding.py先将其转换为embedding，然后用do_agg.py将上一步输出整合为index文件，前两步完成后，可以用do_retrieval.py进行序列查找。但uniref数据库的embedding非常缓慢。。一张v10032g预计得跑300+h，我直接放弃了。。 你好，我看UniRef90.fasta中一条序列都是30000+氨基酸，这种长序列怎么做embedding提取啊？