edgeRModeClassifier: Interaction mode classification with edgeR likelihood ratio...

In taylo5jm/interactions: Classification of gene expression profile sets generated from combination stimuli

Description

Interaction mode classification with edgeR likelihood ratio tests

Usage

edgeRModeClassifier(counts, genes, metadata, design, alpha = 0.01,
  DRUG_COMBINATION = TRUE)

Arguments

counts	numeric matrix of counts where rows are genes and columns are libraries
genes	data.frame of gene metadata
metadata	data.frame with metadata retrieved for 4 conditions
alpha	numeric vector indicating what alpha should be used to code pairwise comparison outcome vectors
null	Boolean TRUE if null distribution should be simulated by permuting columns of counts matrix

Value

list of interaction modes & classes, outcome vectors, EList (voom), lmFit() object, eBayes() object, design matrix and summary table

taylo5jm/interactions documentation built on May 31, 2019, 3:57 a.m.