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nf-core / scdownstream

A single cell transcriptomics pipeline for QC, integration and making the data presentable
https://nf-co.re/scdownstream
MIT License
5 stars 3 forks source link

Implement doublet detection methods #14

Open nictru opened 3 weeks ago

nictru commented 3 weeks ago

Description of feature

SOLO has already been implemented. The following have been implemented in YASCP and could easily be adopted:

### Tasks
- [ ] https://github.com/nf-core/scdownstream/issues/15
- [ ] https://github.com/nf-core/scdownstream/issues/16
- [ ] https://github.com/nf-core/scdownstream/issues/17
- [ ] https://github.com/nf-core/scdownstream/issues/18
- [ ] https://github.com/nf-core/scdownstream/issues/19

Should probably discuss with the authors of YASCP first, which ones worked best for them

grst commented 3 weeks ago

doubletFinder came out best in this benchmark and also worked well for me anecdotically.