Mulcom: Calculates Mulcom test

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Identification of differentially expressed genes and false discovery rate (FDR) calculation by Multiple Comparison test

Author
Claudio Isella
Date of publication
None
Maintainer
Claudio Isella <claudio.isella@ircc.it>
License
GPL-2
Version
1.24.0

View on Bioconductor

Man pages

Affy
Affy Dataset
AffyIlmn
cross mapping table
harmonicMean
MulCom Harmonic Mean
Illumina
Illumina Dataset
Ilmn
Ilmn Dataset
limmaAffySymbols
significant gene list with limma in Affymetrix
limmaIlmnSymbols
significant gene list with limma in Illumina
mulCalc
MulCom Calculation
mulCAND
Identify the Mulcom candidate feature selection
MULCOM-class
Class MulCom
mulcomGeneListIlmn
significant gene list with limma in Illumina
MULCOM_P
Class MulCom Permutation
mulDELTA
MulCom Delta
mulDiff
MulCom Test Differential analysis
mulFSG
MulCom False Significant Genes
mulIndex
Mulcom Index for Monte Carlo Simlation
mulInt
generates a consensus matrix from list of genes
mulMSE
MulCom Mean Square Error
mulOpt
MulCom optimization
mulOptPars
MulCom Parameter Optimization
mulOptPlot
MulCom optimization Plot
mulParOpt
MulCom Parameters Optimization
mulPerm
MulCom Permutation
mulPermC
MulCom Permutation
mulScores
MulCom Score Calculation
mulSSE
MulCom Sum of Square Error
samAffySymbols
significant gene list with SAM in Affymetrix
samIlmnSymbols
significant gene list with SAM in Illumina
samOptPars
sam Parameter Optimization

Files in this package

Mulcom/DESCRIPTION
Mulcom/NAMESPACE
Mulcom/R
Mulcom/R/MULCOM.R
Mulcom/R/MULCOM_P.R
Mulcom/R/harmonicMean.R
Mulcom/R/mulCAND.R
Mulcom/R/mulCalc.R
Mulcom/R/mulDELTA.R
Mulcom/R/mulDiff.R
Mulcom/R/mulFSG.R
Mulcom/R/mulIndex.R
Mulcom/R/mulInt.R
Mulcom/R/mulMSE.R
Mulcom/R/mulOpt.R
Mulcom/R/mulOptPars.R
Mulcom/R/mulOptPlot.R
Mulcom/R/mulParOpt.R
Mulcom/R/mulPerm.R
Mulcom/R/mulPermC.R
Mulcom/R/mulSSE.R
Mulcom/R/mulScores.R
Mulcom/R/mulib.R
Mulcom/R/samOptPars.R
Mulcom/build
Mulcom/build/vignette.rds
Mulcom/data
Mulcom/data/benchVign.rda
Mulcom/data/datalist
Mulcom/data/others.rda
Mulcom/inst
Mulcom/inst/NEWS
Mulcom/inst/doc
Mulcom/inst/doc/MulcomVignette.R
Mulcom/inst/doc/MulcomVignette.Rnw
Mulcom/inst/doc/MulcomVignette.pdf
Mulcom/man
Mulcom/man/Affy.Rd
Mulcom/man/AffyIlmn.Rd
Mulcom/man/Illumina.Rd
Mulcom/man/Ilmn.Rd
Mulcom/man/MULCOM-class.Rd
Mulcom/man/MULCOM_P.Rd
Mulcom/man/harmonicMean.Rd
Mulcom/man/limmaAffySymbols.Rd
Mulcom/man/limmaIlmnSymbols.Rd
Mulcom/man/mulCAND.Rd
Mulcom/man/mulCalc.Rd
Mulcom/man/mulDELTA.Rd
Mulcom/man/mulDiff.Rd
Mulcom/man/mulFSG.Rd
Mulcom/man/mulIndex.Rd
Mulcom/man/mulInt.Rd
Mulcom/man/mulMSE.Rd
Mulcom/man/mulOpt.Rd
Mulcom/man/mulOptPars.Rd
Mulcom/man/mulOptPlot.Rd
Mulcom/man/mulParOpt.Rd
Mulcom/man/mulPerm.Rd
Mulcom/man/mulPermC.Rd
Mulcom/man/mulSSE.Rd
Mulcom/man/mulScores.Rd
Mulcom/man/mulcomGeneListIlmn.Rd
Mulcom/man/samAffySymbols.Rd
Mulcom/man/samIlmnSymbols.Rd
Mulcom/man/samOptPars.Rd
Mulcom/src
Mulcom/src/mulLibs.cc
Mulcom/vignettes
Mulcom/vignettes/MulcomVignette-ThresholdOptimization.eps
Mulcom/vignettes/MulcomVignette.Rnw