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GTDB 25k is all well and good, but probably not as sensitive as all of genbank.
could we / should we build a "screened" genbank where we include any genome in genbank that has no significant (sourm…
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(this can be a bit of a running issue until we get around to fixing them ;)
The introduction of ANI output in [v4.4.0](https://github.com/sourmash-bio/sourmash/releases/tag/v4.4.0) is pretty awesom…
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..to facilitate comparisons between any utility function changes + prevent regression when developing.
would be good to set up some macro benchmarks too, e.g. using SRR606249.sig.gz in test-data as…
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hackmd for editing: https://hackmd.io/XZ8N_yylQCyPxz5L1-pxdw?view
# Managing home directories and project space on farm's disks
New accounts on farm follow a different model than those created i…
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Hi sourmash team! Is there a way to identify which reads in a metagenome have/have not been classified after running 'sourmash gather' and 'sourmash tax'? For example, a list of read IDs might be gene…
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When running 01_perform_dda.snakefile and downloading a query genome for `Muribaculaceae bacterium Z82` from genbank with the [dominating set differential abundance](https://github.com/dib-lab/2022-do…
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Hi! Im using sourmash version 4.8.3
I have a gather.csv, with multiple hits on Listeria monocytogenes (File: ZymoLog_20231221_GBdbs.gather.csv)
sourmash tax metagenome -g FILENAME.gather.csv -t …
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from [this hackmd](https://hackmd.io/IZNaQM4lToKMLhSa9AH9cg), written for @drtamermansour :)
check out https://github.com/spacegraphcats/spacegraphcats/pull/303
catlas objected loaded [here](htt…
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Q: How many sourmash hashes does it take to classify a genome uniquely?
If the answer is 1, then there is a single hash that identifies this specific genome! :tada:
If the answer is “you cannot…
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below, if `pathlist.txt` contains a path that cannot be loaded, sourmash tells us that `pathlist.txt` can't be loaded instead of complaining about the specific file.
```
% sourmash sig fileinfo pa…