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MassSpecWavelet specifications


Unique identifier OMICS_10872
Name MassSpecWavelet
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU Lesser General Public License version 3.0
Computer skills Advanced
Version 1.46.0
Stability Stable
caTools, waveslim, xcms
Maintained Yes


No version available



  • person_outline Pan Du <>

Publication for MassSpecWavelet

MassSpecWavelet citations


A conserved role of the RSC chromatin remodeler in the establishment of nucleosome depleted regions

PMCID: 5383693
PMID: 27558480
DOI: 10.1007/s00294-016-0642-y

[…] function from the “gplots” package., nucleosome positions were computed for each dataset as the local maximum of nucleosome occupancy in a 100 bp window using the localmaximum() function from the “massspecwavelet” package. promoter ndr length is computed as the distance in bases between the position of the first nucleosome before the tss and the first nucleosome after the tss. this metric […]


Signal Partitioning Algorithm for Highly Efficient Gaussian Mixture Modeling in Mass Spectrometry

PMCID: 4521892
PMID: 26230717
DOI: 10.1371/journal.pone.0134256

[…] for improving peak detection in simulated mass spectra. we present comparisons of our algorithm of peak detection to the two peak detection algorithms of high efficiency published in the literature, massspecwavelet (based on continuous wavelet transform, cwt, approach) [] and cromwell (based on spectra differentiation) []. comparisons are based on a large number of artificially generated […]


Visualization of proteomics data using R and Bioconductor

PMCID: 4510819
PMID: 25690415
DOI: 10.1002/pmic.201400392

[…] preprocessing for relative quantitation and statistical analysis and enables visualization throughout the pipeline. other packages provide functionality to process raw ms data, such as, among others massspecwavelet [] continuous wavelet transform for peak detection (used internally by xcms), brain [] to to calculate the aggregated isotopic distribution, process [] for seldi-tof data processing. […]


Identifying and quantifying metabolites by scoring peaks of GC MS data

PMCID: 4307155
PMID: 25492550
DOI: 10.1186/s12859-014-0374-2

[…] home page: system: platform independentprograming language: r [] version 3.0.0 or higherother requirements: r packages xcms [], svdialogs [], pander [] and massspecwavelet []license: general public license version 3, additional file 1 , additional file 2 , competing interests , the authors declare that they have no competing interests., […]


Wavelet Based Peak Detection and a New Charge Inference Procedure for MS/MS Implemented in ProteoWizard’s msConvert

PMCID: 4324452
PMID: 25411686
DOI: 10.1021/pr500886y

[…] peak. msinspect, openms, and dywave all employ wavelet transformations to assess the correlation between a model wavelet and spectral data. du and co-workers developed a similar algorithm called massspecwavelet using continuous wavelet transformations (cwts) and showed that this approach outperformed methods based on peak intensity and discrete wavelet transformations. another feature […]


Systems Biology, Bioinformatics, and Biomarkers in Neuropsychiatry

PMCID: 3529307
PMID: 23269912
DOI: 10.3389/fnins.2012.00187

[…] and non-linear modeling, classification, and clustering of the obtained data. its application through bioconductor involves several packages like htqpcr for ht quantitative real-time pcr assays, massspecwavelet, and process for mass spectrometric data processing, vegamc for comparative genome hybridization datasets (morganella and ceccarelli, ), easyrnaseq for rna sequence datasets (delhomme […]

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MassSpecWavelet institution(s)
Robert H Lurie Comprehensive Cancer Center, Northwestern UniversityChicago, IL, USA

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