Tools for high-throughput metabolomics


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Documentation for package ‘yamss’ version 1.34.1

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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.