ent.toli: Remove outlier cells when calculating ROGUE

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

Description

Remove outlier cells when calculating ROGUE

Usage

ent.toli(ent, expr, n = 2, span = 0.5, r = 1, mt.method = c("fdr","BH"))

Arguments

ent	A tibble object returned from the SE_fun or entropy_fit function.
expr	The expression matrix. Rows should be genes and columns should be cells.
n	Remove this many outlier cells.
span	The parameter α which controls the degree of smoothing.
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.

Value

A tibble object with seven columns as 'ent' object.

Examples

ent.toli(ent.res, expr, n = 2, mt.method = "fdr")

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