-
The root cause of the 10x slowdown in the branchwater plugin (https://github.com/sourmash-bio/sourmash_plugin_branchwater/issues/463) was that `downsample_scaled` was being called on every `against` s…
-
I think it might be time to push forward with a release for spacegraphcats v3, which would break all our old results and workflows a bit ;).
motivating PRs -
- https://github.com/spacegraphcats/…
-
Just a thought for a future version (and not now) but it might be kind of awesome if we could merge two databases. If it works, it could be a mechanism for users to update local databases without hav…
-
for charcoal, there is some interesting logic encoded [here](https://github.com/dib-lab/charcoal/blob/c7fd19205e92461bb5ee09735e05d107e35a1779/charcoal/utils.py#L198) in utils.py --
```
taxlis…
-
We have a few different issues around adding `--from-file` to new commands, e.g. https://github.com/sourmash-bio/sourmash/issues/1631.
As I was implementing #1657 for a different reason, though, I …
-
## Version **4.1.2** of [tap-spec](https://github.com/scottcorgan/tap-spec) was just published.
Branch
Build failing 🚨
Dependency
…
-
per https://sourmash.readthedocs.io/en/latest/developer.html,
* it's not clear that the "general instructions" come after/are an ALTERNATIVE to the mamba install stuff
* the mamba install stuff do…
-
I have a list of accession numbers. Can I use sourmash to generate the equivalent LCAs?
-
Dear sourmash-bio team,
this is a feature request.
Unlike nt-genomes I am comparing protein based minhashes.
Here, every single protein of one species and its corresponding minhash is compared to a…
-
Hi there
I have received genomes from numerous sources, some previously public, some not but I don't know which
So I have a set of genomes and want to see if any of them are identical to the large…