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I am comparing the results of mmseqs to blastp with 2 libraries of olfactory receptors. For most comparisons- the result of mmseqs is like blastp. However- for some cases mmseqs omits some hits, for w…
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## Expected Behavior
`mmseqs concatdbs ... --preserve-keys` with a3m MSA db inputs should produce a single file that is effectively a bash concat of them.
## Current Behavior
"Empty msa1! Ski…
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I was trying to generate new alignments using the `precompute_alignments_mmseqs.py ` script:
```
python3 scripts/precompute_alignments_mmseqs.py /fasta_dir/query_seqs.fasta \
data/mmseqs_dbs…
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Hi, I`am running the script prep_mmseqs_dbs.sh.
I`ve done the corrections in script changing tar2exprofiledb to tsv2exprofiledb.
but the script extract the files and return the following error:
…
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Hi,
I installed Ezaai using conda. However, there is an error when running the command as shown below:
Command: ezaai extract -i fasta/Ci.fasta -o db/seq_db -dev
[MAR 13 17:12:16] EzAAI |: EzA…
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Based on the "help" output, it seems like the parameters "hhsearch_binary_path" and "pdb70" are optional.
However, in the 'main' function, hhsearch_pdb70_runner is forced to run regardless of wheth…
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## Context
I need to create MSAs for a very large set of protein sequences: about 25 million.
I was planning to use the ColabFold workflow. I figured that this would be achievable given the nonlin…
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Hi there,
I have installed Orthofinder v2.5.2 via conda. I can run it using protein sequences as input but I have problems when I try to use CDS sequences.
When I ran the command using "-d -S mmse…
adr14 updated
3 years ago
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## Expected Behavior
`mmseqs download` would be expected to download an up-to-date version of the target 'nr' and 'nt' databases.
## Current Behavior
The download FASTA targets for the 'nr' and '…
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Hi some of my runs fail with this error
Traceback (most recent call last):
File "conda/envs/plasx/bin/plasx", line 8, in
sys.exit(run())
File "conda/envs/plasx/lib/python3.8/site-packag…