iontree
This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.
This package is for version 3.6 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see iontree.
Data management and analysis of ion trees from ion-trap mass spectrometry
Bioconductor version: 3.6
Ion fragmentation provides structural information for metabolite identification. This package provides utility functions to manage and analyse MS2/MS3 fragmentation data from ion trap mass spectrometry. It was designed for high throughput metabolomics data with many biological samples and a large numer of ion trees collected. Tests have been done with data from low-resolution mass spectrometry but could be readily extended to precursor ion based fragmentation data from high resoultion mass spectrometry.
Author: Mingshu Cao
Maintainer: Mingshu Cao <mingshu.cao at agresearch.co.nz>
citation("iontree")):
Installation
To install this package, start R (version "3.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("iontree")
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("iontree")| MSn | R Script | |
| Reference Manual | ||
| LICENSE | Text |
Details
| biocViews | MassSpectrometry, Metabolomics, Software |
| Version | 1.24.0 |
| In Bioconductor since | BioC 2.9 (R-2.14) (12.5 years) |
| License | GPL-2 |
| Depends | methods, rJava, RSQLite, XML |
| Imports | |
| System Requirements | |
| URL |
See More
| Suggests | iontreeData |
| 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 | iontree_1.24.0.tar.gz |
| Windows Binary | iontree_1.24.0.zip |
| Mac OS X 10.11 (El Capitan) | iontree_1.24.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/iontree |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/iontree |
| Package Short Url | https://bioconductor.org/packages/iontree/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.6 | Source Archive |