Entry: ppc.cv
Aliases: ppc.cv
Keywords: 
Description: Cross-validation for PPC analysis
URL: ../../../library/ppc/html/ppc.cv.html

Entry: ppc.fdr
Aliases: ppc.fdr
Keywords: 
Description: Function to estimate False Discovery rates for peaks in PPC analysis
URL: ../../../library/ppc/html/ppc.fdr.html

Entry: ppc.find.splits
Aliases: ppc.find.splits
Keywords: 
Description: Function to find best discriminating split points for training data in mass spec
URL: ../../../library/ppc/html/ppc.find.splits.html

Entry: ppc-internal
Aliases: ppc.make.centroids which.is.min medoid permute.rows balanced.folds hclust.1d ppc.read.peaks.file
Keywords: internal
Description: Internal ppc functions
URL: ../../../library/ppc/html/ppc.internal.html

Entry: ppc.make.centroid.list
Aliases: ppc.make.centroid.list
Keywords: 
Description: Function to make a list of peak centroids, from a set of peaks from different spectra
URL: ../../../library/ppc/html/ppc.make.centroid.list.html

Entry: ppc.make.peaklist
Aliases: ppc.make.peaklist
Keywords: 
Description: Function to extract peaks from raw mass spec data
URL: ../../../library/ppc/html/ppc.make.peaklist.html

Entry: ppc.peak.summary
Aliases: ppc.peak.summary
Keywords: 
Description: Produce summary of peaks from PPC analysis
URL: ../../../library/ppc/html/ppc.peak.summary.html

Entry: ppc.peaks
Aliases: ppc.peaks
Keywords: 
Description: Find local maxima
URL: ../../../library/ppc/html/ppc.peaks.html

Entry: ppc.plot.hist
Aliases: ppc.plot.hist
Keywords: 
Description: Plot peak histograms from PPC analysis
URL: ../../../library/ppc/html/ppc.plot.hist.html

Entry: ppc.plotcv
Aliases: ppc.plotcv
Keywords: 
Description: Function to plot CV curves from PPC analysis
URL: ../../../library/ppc/html/ppc.plotcv.html

Entry: ppc.plotcvprob
Aliases: ppc.plotcvprob
Keywords: 
Description: Function to plot CV probabilities from PPC analysis
URL: ../../../library/ppc/html/ppc.plotcvprob.html

Entry: ppc.plotfdr
Aliases: ppc.plotfdr
Keywords: 
Description: Function to plot FDR results from PPC analysis
URL: ../../../library/ppc/html/ppc.plotfdr.html

Entry: ppc.predict
Aliases: ppc.predict
Keywords: 
Description: Function to do test set prediction for the PPC method
URL: ../../../library/ppc/html/ppc.predict.html

Entry: ppc.predict.peaks
Aliases: ppc.predict.peaks
Keywords: 
Description: A function to find centroid peaks, in a list of individual peaks
URL: ../../../library/ppc/html/ppc.predict.peaks.html

Entry: ppc.predict.peaks1
Aliases: ppc.predict.peaks1
Keywords: 
Description: A function to find centroid peaks, in a list of individual peaks from one spectrum
URL: ../../../library/ppc/html/ppc.predict.peaks1.html

Entry: ppc.predict1
Aliases: ppc.predict1
Keywords: 
Description: Function to do a single test set prediction for the PPC method
URL: ../../../library/ppc/html/ppc.predict1.html

Entry: ppc.read.peaks.batch
Aliases: ppc.read.peaks.batch
Keywords: 
Description: Read in mass spec peak data, with batches
URL: ../../../library/ppc/html/ppc.read.peaks.batch.html

Entry: ppc.read.peaks.nobatch
Aliases: ppc.read.peaks.nobatch
Keywords: 
Description: Read in mass spec peak data, without batches
URL: ../../../library/ppc/html/ppc.read.peaks.nobatch.html

Entry: ppc.read.raw.batch
Aliases: ppc.read.raw.batch
Keywords: 
Description: A function to read in raw protein mass spec data, with batches
URL: ../../../library/ppc/html/ppc.read.raw.batch.html

Entry: ppc.read.raw.nobatch
Aliases: ppc.read.raw.nobatch
Keywords: 
Description: A function to read in raw protein mass spec data, with no batches
URL: ../../../library/ppc/html/ppc.read.raw.nobatch.html

Entry: ppc.remove.beforeslash.and.suffix
Aliases: ppc.remove.beforeslash.and.suffix
Keywords: 
Description: Remove characters efore a slash and at end
URL: ../../../library/ppc/html/ppc.remove.beforeslash.and.suffix.html

Entry: ppc.remove.suffix
Aliases: ppc.remove.suffix
Keywords: 
Description: Function to remove the suffix from a file name
URL: ../../../library/ppc/html/ppc.remove.suffix.html

Entry: ppc.subset.and.reshape
Aliases: ppc.subset.and.reshape
Keywords: 
Description: Function to subset and reshape raw mass spec data
URL: ../../../library/ppc/html/ppc.subset.and.reshape.html

Entry: ppc.subset.and.reshape.peakdata
Aliases: ppc.subset.and.reshape.peakdata
Keywords: 
Description: Function to subset and reshape mass spec peak data
URL: ../../../library/ppc/html/ppc.subset.and.reshape.peakdata.html
