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https://github.com/sourmash-bio/sourmash/pull/1720 introduces `MinHash.inflate(...)` but there's room for some more tests. Specifically, it would be good to test `inflate` directly in the `test_minhas…
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So the design of BioSequences makes it difficult to implement efficient and correct hashing.
We want efficient hashing, because hashing underlies operations like putting stuff in a `Set` or `Dict`, w…
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Hey there - I was just wondering if you have plans to index other databases for metagenomics reads as I feel our lab's meta-analysis efforts have definitely been biased towards the SRA. We've already …
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Hello! I'm interested in building a database for the lineages not already built and released by sourmash devs that are on genbank: invertebrate, plant, vertebrate_mammalian, vertebrate_other. What is …
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per https://github.com/sourmash-bio/sourmash/issues/267#issuecomment-1117633898
@dkoslicki says:
> In the FracMinHash sketches, does sourmash save the k-mers that led to the hash values, or just t…
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https://snakemake.readthedocs.io/en/stable/snakefiles/configuration.html
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For latest release, [4.8.8](https://zenodo.org/records/10951577), authorship is listed as Brown, C. Titus, Irber Junior, Luiz Carlos
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per https://github.com/dib-lab/sourmash/issues/875#issuecomment-583783495
this would be an API change to a frequently used function, so gotta be careful and do this for a major version change.
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Once https://github.com/sourmash-bio/sourmash/pull/1967 is merged, ANI will available in CSV files! 🎉
It is also available in `sourmash compare` matrix output, if `--ani` is used. 🎉
I don't _t…
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in https://github.com/sourmash-bio/sra_search/pull/12, @luizirber defines some functions that seem to me like they would be nice to have in sourmash core -
* `fn check_compatible_downsample` - che…