nbinom.estimation: Estimate the mean and dispersion parameter for each gene

In heiniglab/scPower: Experimental design framework for scRNAseq population studies (eQTL and DE)

Estimate the mean and dispersion parameter for each gene

Description

Code adapted from the DESeq function estimateDispersion (Bioconductor R package DESeq, Simon Anders (EMBL Heidelberg), DOI 10.18129/B9.bioc.DESeq )

Usage

nbinom.estimation(counts.ct, sizeFactorMethod = "standard")

Arguments

counts.ct	Count matrix
sizeFactorMethod	Use to different size factor normalization methods, either the "standard" method from DEseq or "poscounts" of DESeq2

Value

list with three data frame containing the normalized mean values, the dispersion parameters and the parameters for the mean-dispersion function estimated using the DESeq approach

heiniglab/scPower documentation built on Jan. 9, 2025, 12:13 p.m.