lpc: Lassoed principal components for testing significance of features

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Implements the LPC method of Witten&Tibshirani(Annals of Applied Statistics 2008) for identification of significant genes in a microarray experiment.

Author
Daniela M Witten and Robert Tibshirani
Date of publication
2013-12-15 21:44:14
Maintainer
Daniela M Witten <dwitten@uw.edu>
License
GPL (>= 2)
Version
1.0.2

View on CRAN

Man pages

EstimateLPCFDR
Estimate LPC False Discovery Rates.
EstimateTFDR
Estimate T False Discovery Rates.
LPC
Compute LPC score for each gene
lpc-internal
Internal lpc functions
lpc-package
This package implements the Lassoed Principal Components...
PlotFDRs
Plot FDRs for both T and LPC
PredictiveAdvantage
Plot predictive advantage of LPC vs. T
PrintGeneList
Print the list of genes with highest LPC scores

Files in this package

lpc
lpc/NAMESPACE
lpc/R
lpc/R/CheckLPCFormat.R
lpc/R/EstimateTFDR.R
lpc/R/print.lpcfdrobj.R
lpc/R/GetSoftThresh.R
lpc/R/coxstuff.R
lpc/R/coxvar.R
lpc/R/CheckEstimateLPCFDRFormat.R
lpc/R/LPC.R
lpc/R/print.lpcobj.R
lpc/R/EstimateLPCFDR.R
lpc/R/PredictiveAdvantage.R
lpc/R/CheckPlotFDRsFormat.R
lpc/R/CreateTrainTestSet.R
lpc/R/PrintGeneList.R
lpc/R/quantitative.func.R
lpc/R/coxscor.R
lpc/R/print.tfdrobj.R
lpc/R/varr.R
lpc/R/CheckEstimateTFDRFormat.R
lpc/R/PlotFDRs.R
lpc/R/multiclass.R
lpc/R/CheckPrintGeneListFormat.R
lpc/R/cox.func.R
lpc/R/ttest.func.R
lpc/R/PredictiveModel.R
lpc/R/CheckPredictiveAdvantageFormat.R
lpc/MD5
lpc/DESCRIPTION
lpc/man
lpc/man/EstimateTFDR.Rd
lpc/man/PredictiveAdvantage.Rd
lpc/man/PrintGeneList.Rd
lpc/man/lpc-package.Rd
lpc/man/lpc-internal.Rd
lpc/man/PlotFDRs.Rd
lpc/man/EstimateLPCFDR.Rd
lpc/man/LPC.Rd