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see https://github.com/sourmash-bio/sourmash/issues/2168 - a few ideas:
* remove `-n` completely, 'cause it's a bit silly;
* increase `-n` to be something larger than three;
* adjust docstring fo…
ctb updated
10 months ago
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When attempting to intersect signature files with preserved abundance, I followed this [documentation](https://sourmash.readthedocs.io/en/latest/command-line.html#sourmash-signature-intersect-intersec…
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it'd be super nice to have some ways for people to dig into charcoal predictions of contamination. we can't provide it as part of the default charcoal workflow unless we want to provide access to the …
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from a slack thread, a few links and tips we could add to docs for new sourmash developers -
@mr-eyes says:
>Alternatively, if the edit is minor, you can suggest a change directly on Luiz's PR. He…
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right now, the `fromfile` format doesn't support a simple way to produce translated sequence - presumably we'd need to add a CDS column or something, or else build workflows (elsewhere) to do prodigal…
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I'd like to compute and index MinHash sketches on GTDB r202 representive genomes.
The sketching step (v4.2.1) is parallelized with 16 or 40 threads on a 160-cores machine. But some processes stoppe…
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dumping this so it's findable
![image](https://user-images.githubusercontent.com/23057646/167444519-dd1719c1-7c5f-4e9c-b719-a54139c9782f.png)
https://gist.github.com/taylorreiter/50c55359393bf2bd9…
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Suggested by @rob-p on twitter: https://twitter.com/nomad421/status/1444837857382764551
Is there anyway in sourmash (compare) to get a sparse similarity/containment matrix? Say I'm only interested in…
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There are a variety of things that aren't well tested in the sourmash signature module - e.g. the `--ksize` and `--dna/--protein` flags aren't explicitly tested for most of the functions, and the test…
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We have persistent challenges getting sourmash up and running in new checkouts.
Also, I spent a frustrating few minutes this morning trying to get sourmash to build the new rust code.
A few thou…