metabCombiner
This is the development version of metabCombiner; for the stable release version, see metabCombiner.
Method for Combining LC-MS Metabolomics Feature Measurements
Bioconductor version: Development (3.20)
This package aligns LC-HRMS metabolomics datasets acquired from biologically similar specimens analyzed under similar, but not necessarily identical, conditions. Peak-picked and simply aligned metabolomics feature tables (consisting of m/z, rt, and per-sample abundance measurements, plus optional identifiers & adduct annotations) are accepted as input. The package outputs a combined table of feature pair alignments, organized into groups of similar m/z, and ranked by a similarity score. Input tables are assumed to be acquired using similar (but not necessarily identical) analytical methods.
Author: Hani Habra [aut, cre], Alla Karnovsky [ths]
Maintainer: Hani Habra <hhabra1 at gmail.com>
citation("metabCombiner")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("metabCombiner")
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("metabCombiner")
Combine LC-MS Metabolomics Datasets with metabCombiner | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | MassSpectrometry, Metabolomics, Software |
Version | 1.15.2 |
In Bioconductor since | BioC 3.12 (R-4.0) (4 years) |
License | GPL-3 |
Depends | R (>= 4.0) |
Imports | dplyr (>= 1.0), methods, mgcv, caret, S4Vectors, stats, utils, rlang, graphics, matrixStats, tidyr |
System Requirements | |
URL | |
Bug Reports | https://www.github.com/hhabra/metabCombiner/issues |
See More
Suggests | knitr, rmarkdown, testthat, BiocStyle |
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 | metabCombiner_1.15.2.tar.gz |
Windows Binary (x86_64) | metabCombiner_1.15.2.zip |
macOS Binary (x86_64) | metabCombiner_1.15.2.tgz |
macOS Binary (arm64) | metabCombiner_1.15.2.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/metabCombiner |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/metabCombiner |
Bioc Package Browser | https://code.bioconductor.org/browse/metabCombiner/ |
Package Short Url | https://bioconductor.org/packages/metabCombiner/ |
Package Downloads Report | Download Stats |