Tracker: `slow-odgi`
- Dominant language
- Rust
- Stars
- 45
- Forks
- 3
- PR merge metrics
- No merged PRs in 30d
Description
This is a parking lot for slow-odgi things that have gotten some triage but are not going to get done in this current push.
- [ ] `groom`. It's quite a beast! See [here](https://matrix.to/#/!gfJejgcqPPoQQwBTPY:matrix.org/$p0NGvZchecT5B_bYhA8UaSTZZlkR8YAgfUGZ8TyP1uU?via=matrix.org) and https://github.com/cucapra/pollen/commit/6c361b2d8fdb29626f2a53bb09d5023d857bd2fa.
- [x] `flip`. Basic functionality, plus document points of divergence.
- [ ] `slow-odgi flip` disagrees with `odgi flip` on graph `note5.gfa`. See https://github.com/cucapra/pollen/pull/52#issuecomment-1513958802
- [x] #73
- [ ] `overlap`. We currently implement a straightforward version: a candidate path is queried along its _entire length_. There exists a more sophisticated version, where we query a particular portion of a path (referenced via a BED file). See https://github.com/cucapra/pollen/issues/32#issuecomment-1499839056
- [x] #23
- [x] #72
- [ ] Speed it up while still mostly living in Python. @rachitnigam is interested in this as a weekend project.
- [x] More thoughtful storage of handmade files. See https://github.com/cucapra/pollen/pull/50#issuecomment-1507803443
- [x] #71
- [ ] #100
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