lmAnalysis: lmAnalysis

In Merguerrero/BasicP: Function to support a microarray data analysis pipeline

Description

Function to make the linear model analysis.

Usage

lmAnalysis(exprs.filtered, design, cont.matrix,
  contrasts2test = 1:ncol(cont.matrix), anotPackage,
  Expressions_And_Top = TRUE, showParams = FALSE, use.dupCorr = FALSE,
  block = NULL, nDups = 1, comparison = "", outputDir = ".",
  ENTREZIDs = NULL, SYMBOLIDs = NULL, linksFile, fitFileName, csvType,
  rows2HTML = NULL, anotFileName)

Arguments

exprs.filtered	Dataset of filtered and normalized data.
design	Design matrix.
cont.matrix	Contrast matrix.
contrasts2test	Numeric vector that contains the number of the columns for the contrasts to analyze.
anotPackage	Annotation package.
Expressions_And_Top	If is TRUE it will do "Expresions" and the toptable.
showParams	If FALSe it won't show the lmFit parameters in the ExpressionsAndToptable.
use.dupCorr	???
block	???
nDups	???
comparison	Name of the comparations in all contrasts.
outputDir	Path of the file created.
ENTREZIDs	Name of the file for Entrez genes.
SYMBOLIDs	Name of the file for gene Symbols .
linksFile	Name of the file linksFile.
fitFileName	???
csvType	type of csv to store the data.
rows2HTML	???
anotFileName	???

Merguerrero/BasicP documentation built on May 20, 2019, 2:24 p.m.