normalMM {CEDA} | R Documentation |
Performing empirical Bayes modeling on limma results
Description
This function perform an empirical Bayes modeling on log fold ratios and return the posterior log fold ratios.
Usage
normalMM(data, theta0, n.b = 5, d = 10)
Arguments
data |
A numeric matrix containing limma results and log2 gene expression levels that has a column nameed 'lfc' and a column named 'exp.level.log2' |
theta0 |
Standard deviation of log2 fold changes under permutations |
n.b |
Number of bins, default is 5 bins |
d |
Number of times for fitting mixture model using different starting values, default is 10 |
Value
A numeric matrix containing limma results, RNA expression levels, posterior log2 fold ratio, log p-values, and estimates of mixture model
[Package CEDA version 1.1.1 Index]