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CluMSID
This is thedevelopment version of CluMSID; for the stable release version, seeCluMSID.
Clustering of MS2 Spectra for Metabolite Identification
Bioconductor version: Development (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("CluMSID")):Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")# The following initializes usage of Bioc develBiocManager::install(version='devel')BiocManager::install("CluMSID")For older versions of R, please refer to the appropriateBioconductor 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 | 1.27.0 |
| In Bioconductor since | BioC 3.9 (R-3.6) (6.5 years) |
| License | MIT + fileLICENSE |
| 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
FollowInstallation instructions to use this package in your R session.
| Source Package | CluMSID_1.27.0.tar.gz |
| Windows Binary (x86_64) | CluMSID_1.27.0.zip |
| macOS Binary (x86_64) | |
| 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 |