MassSpecWavelet: Mass spectrum processing by wavelet-based algorithms

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Processing Mass Spectrometry spectrum by using wavelet based algorithm

Author
Pan Du, Warren Kibbe, Simon Lin
Date of publication
None
Maintainer
Pan Du <dupan.mail@gmail.com>
License
LGPL (>= 2)
Version
1.40.0

View on Bioconductor

Man pages

cwt
Continuous Wavelet Transform (CWT)
exampleMS
An example mass spectrum
extendLength
Extend the length of a signal or matrix
extendNBase
Extend the row number of a matrix as the exponential of base...
getLocalMaximumCWT
Identify the local maximum of each column in 2-D CWT...
getRidge
Identify ridges based on the local maximum matrix
getRidgeLength
Estimate the length of the ridge
getRidgeValue
Get the CWT coefficient values corresponding to the peak...
identifyMajorPeaks
Identify peaks based on the ridges in 2-D CWT coefficient...
localMaximum
Identify local maximum within a slide window.
MassSpecWavelet.package
Peak detection of mass spectrum by Wavelet transform based...
mzInd2vRange
Match m/z index to m/z value with a certain error range
mzV2indRange
Match m/z value to m/z index with a certain error range
peakDetectionCWT
The main function of peak detection by CWT based pattern...
plotLocalMax
Plot the local maximum matrix
plotPeak
Plot the identified peaks over the spectrum
plotRidgeList
Plot the ridge list
sav.gol
Estimate the baseline by using Savitzky-Golay Algorithm
smoothDWT
smooth (denoise) the spectrum by DWT (Discrete Wavelet...
tuneInPeakInfo
Tune in the peak information: peak position and peak scale

Files in this package

MassSpecWavelet/DESCRIPTION
MassSpecWavelet/NAMESPACE
MassSpecWavelet/R
MassSpecWavelet/R/c.R
MassSpecWavelet/R/cwt.R
MassSpecWavelet/R/extendLength.R
MassSpecWavelet/R/extendNBase.R
MassSpecWavelet/R/getLocalMaximumCWT.R
MassSpecWavelet/R/getRidge.R
MassSpecWavelet/R/getRidgeLength.R
MassSpecWavelet/R/getRidgeValue.R
MassSpecWavelet/R/i2u.R
MassSpecWavelet/R/identifyMajorPeaks.R
MassSpecWavelet/R/localMaximum.R
MassSpecWavelet/R/mzInd2vRange.R
MassSpecWavelet/R/mzV2indRange.R
MassSpecWavelet/R/peakDetectionCWT.R
MassSpecWavelet/R/plotLocalMax.R
MassSpecWavelet/R/plotPeak.R
MassSpecWavelet/R/plotRidgeList.R
MassSpecWavelet/R/sav.gol.R
MassSpecWavelet/R/smoothDWT.R
MassSpecWavelet/R/tuneInPeakInfo.R
MassSpecWavelet/R/u2i.R
MassSpecWavelet/build
MassSpecWavelet/build/vignette.rds
MassSpecWavelet/data
MassSpecWavelet/data/exampleMS.rda
MassSpecWavelet/inst
MassSpecWavelet/inst/CITATION
MassSpecWavelet/inst/doc
MassSpecWavelet/inst/doc/MassSpecWavelet.R
MassSpecWavelet/inst/doc/MassSpecWavelet.Rnw
MassSpecWavelet/inst/doc/MassSpecWavelet.pdf
MassSpecWavelet/inst/src
MassSpecWavelet/man
MassSpecWavelet/man/MassSpecWavelet.package.Rd
MassSpecWavelet/man/cwt.Rd
MassSpecWavelet/man/exampleMS.Rd
MassSpecWavelet/man/extendLength.Rd
MassSpecWavelet/man/extendNBase.Rd
MassSpecWavelet/man/getLocalMaximumCWT.Rd
MassSpecWavelet/man/getRidge.Rd
MassSpecWavelet/man/getRidgeLength.Rd
MassSpecWavelet/man/getRidgeValue.Rd
MassSpecWavelet/man/identifyMajorPeaks.Rd
MassSpecWavelet/man/localMaximum.Rd
MassSpecWavelet/man/mzInd2vRange.Rd
MassSpecWavelet/man/mzV2indRange.Rd
MassSpecWavelet/man/peakDetectionCWT.Rd
MassSpecWavelet/man/plotLocalMax.Rd
MassSpecWavelet/man/plotPeak.Rd
MassSpecWavelet/man/plotRidgeList.Rd
MassSpecWavelet/man/sav.gol.Rd
MassSpecWavelet/man/smoothDWT.Rd
MassSpecWavelet/man/tuneInPeakInfo.Rd
MassSpecWavelet/src
MassSpecWavelet/src/convolve2.c
MassSpecWavelet/vignettes
MassSpecWavelet/vignettes/MassSpecWavelet.Rnw