Scib-metrics

Added

- Add benchmarking pipeline with plotting {pr}`52` {pr}`69`.

Fixed

- Fix diffusion distance computation, affecting kbet {pr}`70`.

Added

- Add kbet {pr}`60`.
- Add graph connectivty metric {pr}`61`.

Changed

- Switch to random kmeans initialization due to kmeans++ complexity issues {pr}`54`.

Fixed

- Begin fixes to make kmeans++ initialization faster {pr}`49`.

Changed

- Move PCR to utils module in favor of PCR comparison {pr}`46`.

Fixed

- Fix memory issue in `KMeansJax` by using `_kmeans_full_run` with `map` instead of `vmap` {pr}`45`.

Changed

- Reimplement silhouette in a memory constant way, pdist using lax scan {pr}`42`.

Added

- Standardize language of docstring {pr}`30`.
- Use K-means++ initialization {pr}`23`.
- Add pc regression and pc comparsion {pr}`16` {pr}`38`.
- Lax'd silhouette {pr}`33`.
- Cookicutter template sync {pr}`35`.