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Residual variance and variable features for meta cells

rs_mc_residual_variance.Rd

[Experimental] In-memory version of rs_sc_residual_variance().

Usage

rs_mc_residual_variance(sparse_data, residual_fit, n_hvg, verbose)

Arguments

sparse_data

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

residual_fit

List. A fit from rs_mc_fit_residuals().

n_hvg

Integer. Variable features to take from each group.

verbose

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

Value

A list with the following items

  • genes - The gene indices the variances are indexed by. (0-indexed!)

  • variance - Matrix of residual variance, genes by groups.

  • hvg - The selected gene indices, ascending. (0-indexed!)