stlearn.spatial.trajectory.detect_transition_markers_branches

stlearn.spatial.trajectory.detect_transition_markers_branches(adata: AnnData, branch: list[int], cutoff_spearman: float = 0.4, cutoff_pvalue: float = 0.05, screening_genes: None | list[str] = None, use_raw_count: bool = False) → None

Transition markers detection of a branch.

Parameters:

• adata – Annotated data matrix.

• branch – Name of a branch user wants to detect transition markers.

• cutoff_spearman – The threshold of correlation coefficient.

• cutoff_pvalue – The threshold of p-value.

• screening_genes – List of customised genes.

• use_raw_count – True if user wants to use raw layer data.

Return type:

Anndata