MassSpecWavelet

This is the development version of MassSpecWavelet; for the stable release version, see MassSpecWavelet.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.14, 2.13, 2.12, 2.11, 2.10, 2.9, 2.8, 2.7, 2.6, 2.5

Peak Detection for Mass Spectrometry data using wavelet-based algorithms

Bioconductor version: Development (3.24)

Peak Detection in Mass Spectrometry data is one of the important preprocessing steps. The performance of peak detection affects subsequent processes, including protein identification, profile alignment and biomarker identification. Using Continuous Wavelet Transform (CWT), this package provides a reliable algorithm for peak detection that does not require any type of smoothing or previous baseline correction method, providing more consistent results for different spectra. See <doi:10.1093/bioinformatics/btl355} for further details.

Author: Pan Du [aut], Warren Kibbe [aut], Simon Lin [aut], Sergio Oller Moreno [aut, cre] ORCID: 0000-0002-8994-1549

Maintainer: Sergio Oller Moreno <sergioller at gmail.com>

Citation (from within R, enter citation("MassSpecWavelet")):

Pan Du, Warren Kibbe, Simon Lin, Sergio Oller Moreno. MassSpecWavelet: Peak Detection for Mass Spectrometry data using wavelet-based algorithms. doi:10.18129/B9.bioc.MassSpecWavelet, R package version 1.79.2, https://bioconductor.org/packages/MassSpecWavelet.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

BiocManager::install("MassSpecWavelet")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("MassSpecWavelet")

Finding local maxima	HTML	R Script
Using the MassSpecWavelet package	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	ImmunoOncology, MassSpectrometry, PeakDetection, Proteomics, Software
Version	1.79.2
In Bioconductor since	BioC 2.0 (R-2.5) (19.5 years)
License	LGPL (>= 2)
Depends
Imports
System Requirements
URL	https://github.com/zeehio/MassSpecWavelet
Bug Reports	http://github.com/zeehio/MassSpecWavelet/issues

Suggests	signal, waveslim, BiocStyle, knitr, rmarkdown, testthat (>= 3.0.0), bench
Linking To
Enhances
Depends On Me
Imports Me	cosmiq, NMRphasing, Rnmr1D, speaq, xcms
Suggests Me	downlit, metabodecon, metabodeconplus
Links To Me
Build Report	Build Report, r-universe

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	MassSpecWavelet_1.79.2.tar.gz
Windows Binary (x86_64)	MassSpecWavelet_1.79.2.zip
macOS Binary (big-sur-x86_64)	MassSpecWavelet_1.79.2.tgz
macOS Binary (sonoma-arm64)	MassSpecWavelet_1.79.2.tgz
Source Repository	git clone https://git.bioconductor.org/packages/MassSpecWavelet
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/MassSpecWavelet
Package Short Url	https://bioconductor.org/packages/MassSpecWavelet/
Package Downloads Report	Download Stats