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LMGene (version 2.22.0)

LMGene Software for Data Transformation and Identification of Differentially Expressed Genes in Gene Expression Arrays

Description

LMGene package for analysis of microarray data using a linear model and glog data transformation

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Version

Monthly Downloads

71

Version

2.22.0

License

LGPL

Maintainer

Blythe DurbinJohnson

Last Published

February 15th, 2017

Functions in LMGene (2.22.0)

norm

Normalization function
genediff

Gene-by-gene and posterior p-value calculation function.
glog

Generalized log transformation function
tranest

Glog transformation parameter estimation function
tranestAffyProbeLevel

Glog transformation parameter estimation function for probe-level Affymetrix expression data
plotMeanSD

Plotting function for gene means and standard deviations
transeS

Function to apply the glog transform to an expression set.
vlist

Sample experimental/phenotype data for LMGene package
psmeans

Function to take means of probesets.
pvadjust

P-value adjusting function
LMGene

LMGene main function
lnorm

Lowess normalization function
rowaov

Gene by gene ANOVA function
sample.eS

Sample array data for LMGene
sample.ind

Sample probeset index vector
neweS

Coerce a matrix to class ExpressionSet
sample.mat

Sample array data for LMGene package
lnormeS

Function to apply lowess normalization to an expression set.