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I'm using the C API of `block-aligner` to align protein sequences from UniProt database. There are `*`s in some protein sequences. Currently using `block-aligner` to align sequences containing `*` wil…
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Hi, I am trying to build my own Sourmash LCA database based on NCBI, SILVA, or Greengenes databases for taxonomic classification for my k-mer hash dataset (e.g. 7-mer) computed from 16S rRNA gene sequ…
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### Is this a bug or feature request?
feature
### What is the current behavior?
Talking about database tables.
Atm we are using native sequences for their primary keys.
But long time ago we use…
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A conversation with some other folks made me realize that in the gomecc data [[1]](https://www.gbif.org/dataset/9012def0-bd87-48a0-ac9e-e0e78dd37689)[[2]](https://obis.org/dataset/210efc7c-4762-47ee-b…
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Hello,
I'm coming back to pLM-BLAST after leaving it for a while. I really like the approach and wanted to see what improvements had been been made since October 2023. I'm still hoping to apply it…
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I am running some experiment with RoseTTAFold on CASP14 targets, but are uncertain about a few detailed settings:
1. Input FASTA sequences. Do you use per-chain FASTA sequences as provided on the CAS…
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Hey, I am trying to run the blast present in my directories , un-archived from "Tax4Fun2_ReferenceData_v2". But it seems Rstudio isn't recognizing the blastn, filetype "File" and not blastn, filetype …
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My kraken2-build command has been running for a few days (building a ginormous database), but I noticed that it's been "stuck" here since at least this morning. I expect it to count up the number of …
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## The need
exporting sequences annotated by KEGG/PFAM/COG/FutureAwesomeAnnotators is a useful thing. Currently there are roundabout ways of doing this, but `anvi-get-sequences-for-functions` would…
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Using tput instead of direct ANSI escape sequences for changing text and background colors offers several advantages:
- Portability: tput adapts to different terminal capabilities using the terminf…