hh-suite
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soedinglab
Remote protein homology detection suite.
Hi, where can I find documentation to create a custom hmm database ? For the moment I have done a database starting with msa. I followed your exact tutorial except...
The Protein Data Bank `mmcif` standard assigns two identifiers for protein chains, an author assigned chain id `auth_asym_id` and a pdb assigned chain id `label_asym_id`. Base on two examples of...
Hello, I am trying to build a database for HHblits. I have the database was first clustered by mmseqs, and customed for hhsuite. I use the command as below: mmseqs...
:exclamation: Make to check out our [User Guide](https://github.com/soedinglab/hh-suite/wiki). Hello, I encountered some issues while using HH suite. Can you provide me with some help? code: sudo hhblits -i /home/liyumei/ECNet/example/Sequence_WT_ANEH.fasta -d...
The magic commands are ``` git remote add simde [email protected]:simd-everywhere/simde-no-tests.git git fetch --all git subtree pull --squash --prefix lib/simde/simde/ simde v0.7.4 ```
I'm using a slightly modified version of parse_hhr in a currently private repo. I'd like to make that repo public and Open Source. But I want to use a permissive...
The hhalign tool in the hhsuit installed with conda does not use the `-all` parameter, but the compiled installed hhalign's `-all` parameter is valid.
:exclamation: Make to check out our [User Guide](https://github.com/soedinglab/hh-suite/wiki). ## Expected Behavior `hhblits -cpu 20 -i A0A0K3ARH1.fa -d /work/home/ac1daawz21/software/DPAM-main/DPAM/UniRef30_2022_02/UniRef30_2022_02 -oa3m A0A0K3ARH1.a3m` ## Current Behavior I tried to run the code above,...
Dear developer, I am trying to align a query MSA to a template hmm with this command: `hhalign -i alignedSeq_1.fasta -t seq.hmm -all -glob -v 0 -opsi hhalign_result_1.psi` Unfortunately, it...
I used HHBlits via the MPI website If I submit whole protein sequence - 10000 matches, mostly kinase proteins, and the alignment is to a subsection of the query. If...
