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Hi,
I am trying to build a custom database. I am getting stuck at this step of the manual (pg 16):
mpirun -np ffindex_apply_mpi _fas.ff{data,index} -i _a3m_wo_ss.ffindex -d _a3m_wo_ss.ffdata --hh…
ghost updated
5 years ago
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Hi, me and @diegozea are using HH-suite3, v 3.2.0, commit d335e62 on Ubuntu 16.04.5 LTS.
When using hhmakemodel.py with a .hhr coming from hhsearch, it throws an error :
> python3 hhmakemodel.py …
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In the Wiki it is stated:
> For long sequences, it may therefore be of advantage to first search the PDB or the SCOP domain database and then to cut the query sequence into smaller parts on the bas…
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code :
protein_description = struct.getValue('pdbx_descriptor')
protein_description = protein_description.replace('\n', ' ')
protein_description = protein_descri…
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Dear HHsuite developers and users,
I am using hhblits_omp to search many sequences (above 10,000) against custom database. The searching went well at the beginning. But the memory usage becomes hig…
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Hello,
I'm coming back to pLM-BLAST after leaving it for a while. I really like the approach and wanted to see what improvements had been been made since October 2023. I'm still hoping to apply it…
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Hi
I have an existing thread where my question was on obtaining the dsspcmbi binary : https://github.com/soedinglab/hh-suite/issues/72
I then downloaded HHsuite version 3.0.0 (15-03-2015) and I …
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## Issue Description
After successfully running `example_minimal.ipynb`, I encountered a `ValueError` when attempting to predict with a valid input dictionary using `RossmannToolbox`. Despite providi…
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Nathalie provided SPCC24B10.04 as ortholog for MRPL50 YNR022C
enriched 7 fold in the IP of Mrh5 compared to IP of wt.
Confirmed
https://toolkit.tuebingen.mpg.de/ HHpred (structure hit)
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I am trying to run hhpred on my clustering results. I have MMseqs2 Version: 9f344f3d6765a1131f22794d9a6fd9fcd8ca2cdf and hhsuite 3.0 installed.
But I cant find the last command (`cstranslate_mpi`) fr…