lrTest: Likelihood-ratio test

In cz-ye/DECENT: Differential Expression with Capture Efficiency adjustmeNT

Likelihood-ratio test

Description

Likelihood-ratio test for DE analysis of scRNA-seq data

Usage

lrTest(data.obs, out, X, W = NULL, tau, parallel)

Arguments

data.obs	Observed count matrix for endogeneous genes, rows represent genes, columns represent cells
out	Output of fitNoDE, it contains EM algorithm estimates for models without DE between cell-types
X	Data matrix containing dummy variables for covariates of interest (cell-type)
W	Data matrix containing other covariates to adjust DE analysis. Default NULL
tau	cell-specific estimates (intcp,slope) that link Beta-Binomial dispersion parameter to the mean expression.
parallel	If TRUE, run in parallel

Value

A list containing statistics, p-values and parameter estimates for models without DE.

cz-ye/DECENT documentation built on Jan. 25, 2023, 5:57 a.m.