DetermineK: Calculate the value of the reference factor K

In RyanYip-Kat/yipCat: Some function like ArchR style in Seurat Object

Description

Determine the value of the reference factor K by specifying a highly heterogeneous dataset

Usage

DetermineK(expr, span = 0.5, r = 1, mt.method = "fdr", if.adj = T)

Arguments

expr	The expression matrix. Rows should be genes and columns should be cells.
span	The parameter α which controls the degree of smoothing.To improve the performance.
r	A small fixed value to avoid log(0) of mean gene expression levels. The default value of r is set to 1, but can also be set to other values such as 0.1 and 0.01.
mt.method	The multiple testing method used in p.adjust.
if.adj	Whether to apply multiple testing method to adjust p.value.

Value

The K value

Examples

k <- DetermineK(expr, span = 0.5, r = 1, mt.method = "fdr")

RyanYip-Kat/yipCat documentation built on Dec. 18, 2021, 11:55 a.m.