ComBatCorr

This repository contains code for the paper Overcoming the impacts of two-step batch effect correction on gene expression estimation and inference.

Example

• Manuscript Output.rmd: R Markdown file for reproducing all manuscript output.
• Manuscript-Output.html: The HTML output of Manuscript Output.rmd.
• dataExample2.txt: Gene expression data used in the example 3.
• sampleInfoExample2.txt: Sample information data used in the example 3.
• sampleannotation.txt: Sample information data used in the example 2.
• tbdata.rds: Gene experssion data used in the example 4.
• tbsample.rds: Sample information data used in the example 4.

R

• design_adj.R: R function for doing ComBat+Cor.