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Calculate AUCell in Rust (for meta cells)

rs_mc_aucell.Rd

[Experimental] The function will take in a list of gene set indices (0-indexed!) and calculate an AUCell type statistic. Three options here: the recovery-curve AUC of Aibar, et al. (the actual AUCell statistic), an AUC derived from the Mann-Whitney statistic, or average precision. This version works on MetaCell counts which are stored in memory directly. Genes are ranked within each meta cell on the second layer, an f32 cast of the supplied counts.

Usage

rs_mc_aucell(sparse_data, gs_list, aucell_params, verbose)

Arguments

sparse_data

A named list that needs to have data, indptr, indices, nrow, ncol and cs_type. Shape is (metacells, genes).

gs_list

List. List with the gene set indices (0-indexed!) of the genes of interest.

aucell_params

List. The AUCell parameters, see params_sc_aucell().

verbose

Integer. 0L - quiet; 1L - normal verbosity; 2L - detailed verbosity.

Value

A matrix of meta cells x gene sets with the values representing the AUC.