Tools: tl

Functions

Mainly wrappers for embedding functions from scanpy and rapids_singlecell. Contains a function to set backend between CPU (scanpy) and GPU (rapids_singlecell).

tl.set_backend	Set the backend to use for processing.
tl.pca	Perform principal components analysis.
tl.umap	Perform UMAP.
tl.tsne	Perform t-SNE.
tl.harmony	Performs HarmonyPy batch correction.
tl.cluster_embeddings	Perform Phenograph or Scanpy clustering on an .obsm embedding within an AnnData object.
tl.cluster_scores	Assess the quality of clustering results by computing a pairwise clustering score between every other clustering run.