Tools for high-throughput metabolomics

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Documentation for package ‘yamss’ version 1.30.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

bakedpi	Process raw data to compute density estimate.
CMSproc-class	A class to hold chromatography-mass spectrometry preprocessing information.
CMSraw-class	A class to hold chromatography-mass spectrometry raw data and metadata.
cmsRawExample	An example cmsRaw object
CMSslice	A class to hold chromatography-mass spectrometry peak bounds and quantifications.
CMSslice-class	A class to hold chromatography-mass spectrometry peak bounds and quantifications.
colData-method	A class to hold chromatography-mass spectrometry raw data and metadata.
densityCutoff	A class to hold chromatography-mass spectrometry peak bounds and quantifications.
densityEstimate	A class to hold chromatography-mass spectrometry preprocessing information.
densityQuantiles	A class to hold chromatography-mass spectrometry preprocessing information.
diffrep	Perform differential analysis.
getEICS	Compute extracted ion chromatograms for multiple regions.
getTIC	Compute total ion chromatogram (TIC) for a sample.
peakBounds	A class to hold chromatography-mass spectrometry peak bounds and quantifications.
peakQuants	A class to hold chromatography-mass spectrometry peak bounds and quantifications.
plotDensityRegion	Image plot of region of density estimate.
readMSdata	Read raw mass spectral data files.
show-method	A class to hold chromatography-mass spectrometry preprocessing information.
show-method	A class to hold chromatography-mass spectrometry raw data and metadata.
show-method	A class to hold chromatography-mass spectrometry peak bounds and quantifications.
slicepi	Process raw data to compute density estimate.