ATSEmapper

ATSEmapper converts per-cell junction BED files (produced by regtools) into a SplicingDataset.

It is developed and maintained in its own repository: daklab/ATSEmapper

What it does

1. Reads per-cell junction BED files from regtools junction extraction
2. Builds a splice graph and clusters junctions into ATSEs
3. Outputs a SplicingDataset.h5ad with the two layers LeafletFA and SpliceVI require

Install and usage

See the ATSEmapper repository for installation, CLI reference, and example data.