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Hi, am using `mmseqs search` and I want to estimate the peak RAM consumption for my uniref90 database. I found a formula for the prefiltering step in your [wiki](https://github.com/soedinglab/mmseqs2…
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I have a huge dataset I want to cluster and I want to use distributed-memory MPI mode of MMseqs2. I have compiled and successfully run the MPI version of MMseqs2 by prepending the RUNNER="..." string.…
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Dear Foldseek Team:
Thank you for this amazing tool and careful maintenance! I'm using Foldseek to cluster a number of PDB files, but it ran into trouble under some specific circumstance.
## Exp…
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I have a pretty large database: https://zenodo.org/record/7485114#.ZF7RdOzML0o that I use in the backend of [VEBA](https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-022-04973-8) and …
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Hello,
I am trying to train plant specific model. The coding file includes 7.5Gb and lncrna is 322Mb.
They were killed due to memory issue and I wonder that I could get any advice.
Thanks.
``
rna…
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This more a feature request!
would someone have time and competence to create a python module similar to the one for vsearch (https://github.com/qiime2/q2-feature-classifier/tree/master/q2_feature_…
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Dear,
I am using mmseqs2 to remove redundant sequences and isoforms from eukaryotic proteomes. However, we obtained some unexpected and undesired clusters and we would like to understand what is g…
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## Expected Behavior
When `--sort-results 1` is used in `mmseqs taxonomy` together with `--tax-output-mode 2` the alignment result should be ordered.
## Current Behavior
`mmseqs convertalis` …
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## Expected Behavior
I'm trying to run `clusterupdate`, but I'm running into the error:
```
diffseqdbs /ebio/abt3_projects/software/dev/Struo2/tests/output_n10/genes/cluster/genes_db /ebio/abt3…
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## Expected Behavior
Providing --split-memory-limit keyword should mitigate memory requirements
## Current Behavior
Works only with standard MMSeqs2 compiled version, but not with MPI compiled vers…