hh-suite
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soedinglab
Remote protein homology detection suite.
I have two profiles within the pfam database: PF00336.20 and PF17919.3. Querying the database using **hhsearch** with PF00336 hmm as a query I got mapping to PF17919: `ffindex_get pfam_hhm.ffdata pfam_hhm.ffindex...
## Expected Behavior Custom database created for dbCAN v8. ## Current Behavior Error during the `cstranslate` step. ## Steps to Reproduce (for bugs) ``` # creating custom dbCAN hhsuite database...
I'm trying to make a global profile-profile alignment of two MSAs in FASTA format using hhalign (hhsuite-3.3.0-SSE2-Linux), i.e. preserving the columns within each MSA and aligning pairs of columns to...
I am building a custom database according the instructions in the user guide. I would like to understand more specifically how cstranslate converts an alignment to an abstract state alphabet....
:exclamation: Make to check out our [User Guide](https://github.com/soedinglab/hh-suite/wiki). ## Expected Behavior hhr file should have same output to a3m file. ## Current Behavior When type this command, hhblits -i query.fasta...
Hi, I work in a HPC platform where where users do not have write access the globally installed software stack. As hh-suite is right now, users cannot set the databases...
Hi all- Problems on Summit again. Latest clone won't build with gcc 6.4 at all, problems that look like this: ``` /ccs/home/adaa/HHSuite/hh-suite/lib/simde/simde/x86/sse2.h:4253:62: error: invalid parameter combination for AltiVec intrinsic r_.altivec_i16...
:exclamation: Make to check out our [User Guide](https://github.com/soedinglab/hh-suite/wiki). ## Expected Behavior ['T', 'sp|Q96KV6|BT2A', '112', 'NVTAEDNGIYQCYFQEGRSC--NEAILHLVVAG--LDSEPVIE---MRDHEDGGIQLECISGGWYPK-PLTVWRDPYGEV', '183', '(586)'] Should return: token_5 = 586 ## Current Behavior returns token_5 = 183 ##...
This is using the statically linked, single threaded versions downloaded in the last couple of days, running on Linux. I'm just starting with hh-suite, and trying to create a custom...
cif2fasta.py (3.2.0) incorrectly generate protein description when cif file contain multiple fasta
code : protein_description = struct.getValue('pdbx_descriptor') protein_description = protein_description.replace('\n', ' ') protein_description = protein_description.replace(';', ' ') # to prevent parsing errors if len(protein_description.split(' ')) >= 5: protein_description = ' '.join(protein_description.split(' ')[0:5])...
