compute_transition_index: Calculate the critical transition index for cells in a...

In jenzopr/singlecellutils: Utility functions for single-cell data

Description

Calculate the critical transition index for cells in a SingleCellExperiment object. The critical transition index is described in detail in http://www.pnas.org/content/114/9/2271.long.

Usage

compute_transition_index(object, exprs_values, features = NULL,
  pval = 0.01)

Arguments

object	A SingleCellExperiment object.
exprs_values	String indicating which assay contains the data that should be used to calculate the IC.
features	A character vector (of feature names), a logical vector or numeric vector (of indices) specifying the features to use for calculation. The default of NULL will use all features.
pval	The p-value cutoff for correlation values to use in calculations

Value

A list with the IC value (ic), as well as the used correlation values (within (GxG) / between (CxC))

jenzopr/singlecellutils documentation built on June 12, 2019, 2:51 a.m.