differential expression analysis using limma package

updated 08/2020

diffAnalLm(dat, ctrl_columns = c(2:4), trt_columns = c(5:7), id = "ID_REF")

Arguments

dat

dataframe or matrix containing expression data. rows should be features (e.g. genes) and columns should be samples.

ctrl_columns

column names (character vector) or column numbers (numeric vector) of control samples. input type need to be consistant with trt_columns.

trt_columns

column names (character vector) or column numbers (numeric vector) of treatment samples. input type need to be consistant with ctrl_columns.

id

the id for the features, usually probe id. either the column name of the input dataframe contains the id, or character vector of the actual ids for all features.

Value

dataframe of differential analysis