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Over in https://github.com/sourmash-bio/sourmash/pull/1837, I'm discovering some fun challenges with manifests 🎉 .
first, it turns out that manifests do not contain `seed` or `license` (also see ht…
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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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I have a suggestion that may be considered for a future version of sourmash. The current Minhash includes `hashes` and `abundances`. I propose adding an optional array called `positions`, which would …
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here are some thoughts I wrote up for a collaborator, thought I'd share broadly -
The default FracMinHash approach will yield overlap estimates when applied to two metagenomes. In technical terms t…
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luiz's talk about how we develop/design/evolve sourmash: https://www.youtube.com/watch?v=0jpnP8NtRfc&feature=youtu.be
ctb updated
10 months ago
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Hey,
I generated Sourmash signatures (scale 1000) for WGS samples of humans and utilized kSpider for clustering based on these signatures. However, I discovered that the resulting clusters exhibited …
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This is more of an FYI than a bug.
The accession numbers shown in the database tutorial at
https://sourmash.readthedocs.io/en/latest/tutorial-basic.html#make-and-search-a-database-quickly
are mis…
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these are both calculated in sourmash, albeit for FracMinHash sketches.
ref for angular similarity: [wikipedia](https://en.wikipedia.org/wiki/Cosine_similarity#Angular_distance_and_similarity)
a…
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**Submitting Author:** Tessa Pierce-Ward (@bluegenes)
**All current maintainers:** @ctb, @luizirber, @bluegenes
**Package Name:** sourmash
**One-Line Description of Package:** `sourmash` is a comma…
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Dear sourmash team,
I've recently attempted to create a minimal test dataset and encountered an error when using `sourmash gather`.
Specifically, it raises an `AssertionError`.
I think that t…