C. Titus Brown
C. Titus Brown
With https://github.com/sourmash-bio/sourmash/pull/1653, sourmash now offers a `MinHash.seq_to_hashes(...)` function that is both flexible and (hopefully :) performant. More to the point, unlike khmer, sourmash is _maintained_! This PR swaps out the...
from @taylorreiter: > bbmap’s repair.sh is a handing little command that “fixes” arbitrarily mussed up paired end files. It’s come in handy to make the files strictly paired and ordered...
**Note:** This is a PR into #429. **Note:** this will almost certainly require rebuilding all output files. So, should probably be explored in conjunction with #429 😁 --- spacegraphcats 2.0...
A tweet about [bifrost](https://www.biorxiv.org/content/10.1101/695338v2.full) reminded me that one of the things I am interested in exploring with spacegraphcats is multi-sample cDBG. Here's an e-mail I sent about this: --- Colored...
https://twitter.com/nomad421/status/1415703603801690118
@taylorreiter would like some output that would be flexible enough to work with using igraph or other network viz packages in R. Something that is a bit more customizable/annote-atable than...
`git log --oneline v1.3..latest` # Major changes for v2.0 With this v2.0 release, we've fixed several significant bugs, [added thorough documentation](https://spacegraphcats.github.io/spacegraphcats/), added several major new features and a variety of...
with the merge of #310, we would be changing sgc catlas building. so maybe we should make a 2.0 release? a few thoughts on what would be nice for that...
a lot of what spacegraphcats does is I/O and memory bound, not CPU bound. it seems like we could potentially run lots of smaller tasks in combination with the bigger...
See note in `tests/test_dory_workflow.py` added in https://github.com/spacegraphcats/spacegraphcats/pull/413. ``` # CTB note: this test can be merged with test_dory_query_workflow if we # create checkpoint fixture that supports setting checkpoint to both...