hh-suite
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soedinglab
Remote protein homology detection suite.
This PR allows hh-suite to still use the HMMER format. If you'd like, I can add a warning that begs the user not to use it. But, it is important...
I have recently realized that hh-suite has removed support for HMMER files completely. I was wondering if there was a utility to convert HMMER format to the new HHSearch format,...
If I build a DSSP file with the current mkdssp (which corrects along-standing bug in assigning secondary structure, by assigning polyPro helices "correctly" - see https://github.com/PDB-REDO/dssp) I get a bunch...
Hi! I'm using HHFilter 3.3.0 to sample sequences from MSA file which contains tens of thousands of homologous sequences . The command is: `/userhome/anaconda3/envs/proteins/bin/hhfilter -i /userhome/data/TS2/msa/7KVT_B.a2m -o /userhome/data/TS2/7KVT_B_filter.a2m -id 90...
``` In file included from /wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src/hhviterbialgorithm.cpp:7: In file included from /wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src/hhviterbi.h:11: In file included from /wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src/hhhit.h:19: In file included from /wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src/hhhmm.h:8: In file included from /wrkdirs/usr/ports/biology/hhsuite/work/hh-suite-3.3.0/src/util.h:23: In file included from...
:exclamation: Make to check out our [User Guide](https://github.com/soedinglab/hh-suite/wiki). ## Expected Behavior 我想要利用脚本生成您提供的蛋白质以外的蛋白质数据结构 ## Current Behavior 停滞在hhsuite阶段 在filtering database一直不动 ## Steps to Reproduce (for bugs) Please make sure to execute the...
Hi, I wanted to know if there would be a python 3.11 release as conda now comes with python 3.11 as default, Could you please suggest alternatives if this package...
Hi! I was trying to make a custom HHM database based on https://github.com/soedinglab/hh-suite/wiki#building-customized-databases - 'Starting with MSAs'. However, I ran into a Segmentation fault while trying to execute the hhmake...
AlphaFold Stuck at hhblits Step on Cluster Compute Node Issue Description: I am experiencing a problem running AlphaFold on a compute node in our cluster. The process consistently gets stuck...
## Context If the template database (such as pdb100) contains the structure of the query sequence, will "hhsearch" return the structure information of the query sequence as a part of...
