Releases · davemcg/scEiaD

Updated scEiaD scVI model once more. We simplified pan species gene name alignment by removing "one to many" or "many to one" name alignments. All expressed genes are still retained in the individual species (if not present in the gene name name merged matrix), but we are less aggressive about merging gene names across species as we discovered some edge cases where many genes were getting merged into one and vice versa. This necessitated a new core gene <-> cell count matrix and thus a new scVI model. We also took the opportunity to add a new mouse retina development dataset from Balasubramanian et al. and a new ocular compartment dataset from Gautam et al. We leverage the new(ish) scANVI scVI approach in which we use the community cell type labels to subtly improve the scVI modelling of the cell types. We hope this is the final update (hah) before we submit this work.

Assets 2

24 Jul 13:43

davemcg

0.73

ffdf738

bioRxiv version 2 release Pre-release

Pre-release

Updating codebase for the Gigascience resubmission work (mostly from rerunning "all methods" and finding some issues and having to add new config json and yaml files)

Assets 2