scib.metrics.hvg_overlap

scib.metrics.hvg_overlap(adata_pre, adata_post, batch, n_hvg=500, verbose=False)

Highly variable gene overlap

Metric that computes the average percentage of overlapping highly variable genes per batch pre post integration.

Parameters

  • adata_pre – Unintegrated anndata object

  • adata_post – Integrated anndata object

  • batch – Batch variable

  • n_hvg – Number of hvgs to compute per batch

Returns

Average percentage of overlapping highly variable genes