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https://github.com/snail123815/BIO_tools/blob/master/Genome_and_Proteome/compare_proteome.py
Need integrate other tools:
- [ ] PSI-BLAST
- [ ] phmmer
- [ ] jackhmmer
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Would it be possible to add a flag that limits the number of sequences returned by Jackhmmer/Nhmmer/Phmmer/Hmmsearch?
When HMMER is used in the context of protein structure prediction, we usually c…
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Hello Janka
I am very interested in trying out your program. Unfortunately i am not able to run the program on the test data:
(/home/leua/e/digiIS) leua@cl5n007:~/digIS> python digIS_search.py -…
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only the tools deemed essential from #40 for 1.0.0 release, as all of them is a little bit to much:
- [x] BLAST | YES
- [x] IntaRNA | YES
- [x] TargetP | NO
- [x] TMHMM | NO
- [ ] SRAToolkit |…
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I use precomputed msas (--use_precomputed_msas) for my work and af2 currently spends most of its time performing HHSearch and HHblits, even though I know it won't find anything.
Is there any flag to …
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Hi,
the repo seems not having run_hmmer.py
ndnng updated
2 years ago
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RunPipeline command keeps failing, saying that project dir does not exist (even though the initPipeline completes and states that the directory was successfully created). I have used the initPipeline…
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Hello,
I'm using eggnog-mapper for a metagenomic pipeline with hmm searches.
For optimization, i'm using "--usemem" parameter, however the process seems to be stuck in "Waiting for server to bec…
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Hello! I'm trying to install MetAMOS on my system, but having a bit of trouble. I've run the following commands, which completed without incident:
`python INSTALL.py core`
`python INSTALL.py optio…
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The attached hmm and target sequence (both with .txt extension to force github to allow them to be uploaded) pair to yield a >9Kb long gap in an alignment.
[target.fa.txt](https://github.com/EddyR…