CluMSID

This is the released version of CluMSID; for the devel version, see CluMSID.

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

Clustering of MS2 Spectra for Metabolite Identification

Bioconductor version: Release (3.23)

CluMSID is a tool that aids the identification of features in untargeted LC-MS/MS analysis by the use of MS2 spectra similarity and unsupervised statistical methods. It offers functions for a complete and customisable workflow from raw data to visualisations and is interfaceable with the xmcs family of preprocessing packages.

Author: Tobias Depke [aut, cre], Raimo Franke [ctb], Mark Broenstrup [ths]

Maintainer: Tobias Depke <depke at mailbox.org>

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

Tobias Depke. CluMSID: Clustering of MS2 Spectra for Metabolite Identification. doi:10.18129/B9.bioc.CluMSID, R package version 1.28.0, https://bioconductor.org/packages/CluMSID.

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")

BiocManager::install("CluMSID")

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("CluMSID")

CluMSID DI-MS/MS Tutorial	HTML	R Script
CluMSID GC-EI-MS Tutorial	HTML	R Script
CluMSID LowRes Tutorial	HTML	R Script
CluMSID MTBLS Tutorial	HTML	R Script
CluMSID Tutorial	HTML	R Script
Reference Manual	PDF
NEWS	Text
LICENSE	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Clustering, Metabolomics, Preprocessing, Software
Version	1.28.0
In Bioconductor since	BioC 3.9 (R-3.6) (7.5 years)
License	MIT + file LICENSE
Depends	R (>= 3.6)
Imports	mzR, S4Vectors, dbscan, RColorBrewer, ape, network, GGally, ggplot2, plotly, methods, utils, stats, sna, grDevices, graphics, Biobase, gplots, MSnbase
System Requirements
URL	https://github.com/tdepke/CluMSID
Bug Reports	https://github.com/tdepke/CluMSID/issues

Suggests	knitr, rmarkdown, testthat, dplyr, readr, stringr, magrittr, CluMSIDdata, metaMS, metaMSdata, xcms
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	CluMSID_1.28.0.tar.gz
Windows Binary (x86_64)	CluMSID_1.28.0.zip
macOS Binary (big-sur-x86_64)	CluMSID_1.28.0.tgz
macOS Binary (sonoma-arm64)	CluMSID_1.28.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/CluMSID
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/CluMSID
Package Short Url	https://bioconductor.org/packages/CluMSID/
Package Downloads Report	Download Stats