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Dear Author.
Thank you for your contribution to protein function prediction. According to your paper, Domain-PFP performs well against many of the latest tools. I am considering using your tool to …
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Both are readouts, have been removed from SGD
* **PTHR ID & PTN node:**
GO:0006624 | vacuolar protein processing | IBA with S000006157 , PTN001121786
GO:0006624 | vacuolar protein processin…
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* **PTHR ID & PTN node:**
GO:0035965 | cardiolipin acyl-chain remodeling | IBA with PTN000862575 , S000003342 | GO_REF:0000033
* **Sequences with problematic annotation (ID + gene/protein na…
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Dear Jeremy,
First of all please accept my gratitude for your fine work. In terms of the issue, I went ahead and installed Boltz-1 in a fresh virtual environment with conda. I then tried to model an…
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Dear Osamu, @ogotoh
I followed your instruction from [issue 77](https://github.com/ogotoh/spaln/issues/77) to successfully map and align protein sequences to a genome. However, the "match format"…
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Homology search started at 2024-08-21 08:40:06.163220.
Settings:
Search method: diamond.
Self-alignment method: native.
Remote fetch enabled: no.
Reading input proteins...
Sulfurospirill…
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I have been using data from TCGA SpliceSeq, and would like to obtain the protein sequences associated with each of the splice events in the database, but this data does not appear downloadable (or I c…
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Hello. I am trying to analyze a DNA sequence fasta file for COGs. Is it possible to use a fasta file for that purpose? The file is aligned with gene NCBI IDs.
Example command:
`BioSAK COG2020 -m N…
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Hi, thank you very much for this paper and codebase. Sorry if my question is super simple, but I was curious about the `DMS_filename` entries you referenced in DMS_substitutions.csv. I am trying my be…
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Dear author, the tool you compiled is a very great tool for protein function prediction, very useful for my research, but in the big_space step of the process my genome will encounter I encountered an…