-
Hello,
Hope you're doing well! I was wondering if it would be possible in the future to support custom moltypes, e.g. if I wanted to do a riff on the Dayhoff alphabet where arginines were a special …
-
they're pretty out of date and not super well tested. I think I'd do it better next time I have a use case for these kinds of functionality...
-
with sourmash v4.4, sourmash can now estimate Average Nucleotide Identity between genomes: this is the fraction of bases that would be identical in a pairwise alignment. However, sourmash estimates th…
-
Now that gather is lightening fast, we should replace the `sourmash lca gather` module with `sourmash gather`, and update to the new databases.
https://github.com/dib-lab/dib_rotation/blob/master/d…
-
Following the same process as sourmash-bio/sourmash#2410, we will benchmark the charcoal workflow with [the demo directory](https://github.com/dib-lab/charcoal/tree/latest/demo) and/or the six signatu…
-
Extending https://github.com/sourmash-bio/sourmash/issues/1750, I am copying a conversation between @ctb and @drtamermansour to be detailed later into tasks.
Slack Conversation
Tamer Mansour…
-
Trying to run a multifastgather of genbank-viral-database against viral sequences (~56.000 fasta sequences)
When using 1 fasta sequence it does work and does not run out of memory, but I wanted it to…
-
This is needed for sourmash, ref https://github.com/dib-lab/sourmash/issues/304
-
per https://github.com/sourmash-bio/sourmash/issues/2553#issuecomment-1506094767, we can run sourmash in the browser like so:
> - Go to https://pyodide.org/en/latest/console.html
> - Use `micropip…
-
I implemented new sourmash multiqc modules. I would like these to be integrated into the seqqc pipeline now, but I'm guessing there will be substantial lag time between
1) PRs being merged into mult…