CluMSID
Clustering of MS2 Spectra for Metabolite Identification
Bioconductor version: Release (3.19)
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("CluMSID")
):
Installation
To install this package, start R (version "4.4") 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 | ||
NEWS | Text | |
LICENSE | Text |
Details
biocViews | Clustering, Metabolomics, Preprocessing, Software |
Version | 1.20.0 |
In Bioconductor since | BioC 3.9 (R-3.6) (5.5 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 |
See More
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 |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | CluMSID_1.20.0.tar.gz |
Windows Binary | CluMSID_1.20.0.zip (64-bit only) |
macOS Binary (x86_64) | CluMSID_1.20.0.tgz |
macOS Binary (arm64) | |
Source Repository | git clone https://git.bioconductor.org/packages/CluMSID |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/CluMSID |
Bioc Package Browser | https://code.bioconductor.org/browse/CluMSID/ |
Package Short Url | https://bioconductor.org/packages/CluMSID/ |
Package Downloads Report | Download Stats |