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 3.12 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see MOFA (see replacement MOFA2).
Bioconductor version: 3.12
Multi-Omics Factor Analysis: an unsupervised framework for the integration of multi-omics data sets.
Author: Ricard Argelaguet, Britta Velten, Damien Arnol, Florian Buettner, Wolfgang Huber, Oliver Stegle
Maintainer: Britta Velten <britta.velten at gmail.com>
Citation (from within R,
enter citation("MOFA")
):
To install this package, start R (version "4.0") and enter:
if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("MOFA")
For older versions of R, please refer to the appropriate Bioconductor release.
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("MOFA")
HTML | R Script | Introduction to MOFA |
HTML | R Script | MOFA: Application to a single-cell multi-omics data set |
HTML | R Script | MOFA: applications to a multi-omics data set of CLL patients |
HTML | R Script | MOFA: How to assess model robustness and do model selection |
Reference Manual | ||
Text | NEWS | |
Text | LICENSE |
biocViews | Bayesian, DimensionReduction, Software, Visualization |
Version | 1.6.2 |
In Bioconductor since | BioC 3.9 (R-3.6) (2 years) |
License | LGPL-3 | file LICENSE |
Depends | R (>= 3.5) |
Imports | rhdf5, dplyr, reshape2, pheatmap, corrplot, ggplot2, ggbeeswarm, methods, scales, GGally, RColorBrewer, cowplot, ggrepel, MultiAssayExperiment, Biobase, doParallel, foreach, reticulate, grDevices, stats, utils |
LinkingTo | |
Suggests | knitr, MOFAdata |
SystemRequirements | Python (>=2.7.0), numpy, pandas, h5py, scipy, sklearn, mofapy |
Enhances | |
URL | |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Source Package | MOFA_1.6.2.tar.gz |
Windows Binary | MOFA_1.6.2.zip |
macOS 10.13 (High Sierra) | MOFA_1.6.2.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/MOFA |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/MOFA |
Package Short Url | https://bioconductor.org/packages/MOFA/ |
Package Downloads Report | Download Stats |
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