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LMGene (version 2.28.0)

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

85

Version

2.28.0

License

LGPL

Maintainer

Blythe DurbinJohnson

Last Published

February 15th, 2017

Functions in LMGene (2.28.0)

sample.mat

Sample array data for LMGene package
psmeans

Function to take means of probesets.
LMGene

LMGene main function
pvadjust

P-value adjusting function
sample.eS

Sample array data for LMGene
glog

Generalized log transformation function
neweS

Coerce a matrix to class ExpressionSet
plotMeanSD

Plotting function for gene means and standard deviations
tranest

Glog transformation parameter estimation function
norm

Normalization function
sample.ind

Sample probeset index vector
lnormeS

Function to apply lowess normalization to an expression set.
transeS

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

Lowess normalization function
genediff

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

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

Sample experimental/phenotype data for LMGene package
rowaov

Gene by gene ANOVA function