Package index • QUESTIONS

All functions

calculate_spillover(): Calculate gene-level spillover from time 1 to time 2

coerce_to_dgCMatrix(): Coerce a matrix to sparse dgCMatrix format

extract_network_matrix(): Extract a matrix from a network input

is_row_normalized(): Check if a sparse matrix is row-normalized

normalize_rows(): Row-wise normalize a sparse matrix

prune_matrix(): Prune a similarity matrix (TOM or adjacency) to enhance sparsity

spillover_threshold_from_degree(): Calculate a degree-aware spillover threshold for row-normalized networks

spillover_timecourse(): Calculate timecourse spillover across multiple networks

summarize_spillover_by_sample_and_module(): Summarize sample-level spillover per module across a timecourse

summarize_spillover_per_sample(): Compute sample-level spillover summary scores