fitting: runs limma's lmFit, contrast.fit, and eBayes in succession

Description Usage Arguments

Description

runs limma's lmFit, contrast.fit, and eBayes in succession

Usage

1
2
fitting(my_eset = exprs, design = my_design,
  path2contrast_file = "contrast.txt")

Arguments

design

this is a design object created with teh get_design() function its default value is design

path2contrast_file

the default is contrast.txt which is a table that contains the contrasts. It should have a column named Formula in which the contrast based on groups are given and anoter column named Contrast which gives a title for each contrast.

exprs

a ExpressionSet default value is exprs


axelmuller/geometric2 documentation built on May 25, 2019, 6:26 p.m.