netmap.downstream.gene_clustering

Gene co-expression clustering via hierarchical linkage on the GRN attribution matrix.

Functions

add_clusters_to_adata	Cut the dendrogram and annotate adata.var with flat cluster assignments.
compute_regression	Fit a quantile regression to determine an automatic dendrogram cut distance.
get_hierarchical_clustering	Perform hierarchical clustering of genes by pairwise correlation.
plot_regression_and_dendrogram	Plot the hierarchical clustering dendrogram alongside the quantile regression fit.
plot_scatter_plot	Plot a scatter of cophenetic distance vs Pearson correlation for cutoff inspection.