idiffomix: Integrated Differential Analysis of Multi Omics Data using a Joint Mixture Model

A joint mixture model has been developed by Majumdar et al. (2025) <doi:10.48550/arXiv.2412.17511> that integrates information from gene expression data and methylation data at the modelling stage to capture their inherent dependency structure, enabling simultaneous identification of differentially methylated cytosine-guanine dinucleotide (CpG) sites and differentially expressed genes. The model leverages a joint likelihood function that accounts for the nested structure in the data, with parameter estimation performed using an expectation-maximisation algorithm.

Version:	1.0.0
Depends:	R (≥ 3.5.0)
Imports:	foreach, doParallel, parallel, mclust, stats, utils, edgeR, magrittr, ggplot2, scales, tidyr, dplyr, reshape2, gridExtra, grid, tidyselect, cowplot
Suggests:	rmarkdown, knitr
Published:	2025-01-13
DOI:	10.32614/CRAN.package.idiffomix
Author:	Koyel Majumdar [cre, aut], Isobel Claire Gorley [aut], Thomas Brendan Murphy [aut], Florence Jaffrezic [aut], Andrea Rau [aut]
Maintainer:	Koyel Majumdar <koyelmajumdar.phdresearch at gmail.com>
License:	GPL-3
NeedsCompilation:	yes
CRAN checks:	idiffomix results

Documentation:

Reference manual:	idiffomix.pdf
Vignettes:	idiffomix: integrated differential analysis of multi-omics data using a joint mixture model (source, R code)

Downloads:

Package source:	idiffomix_1.0.0.tar.gz
Windows binaries:	r-devel: not available, r-release: not available, r-oldrel: idiffomix_1.0.0.zip
macOS binaries:	r-release (arm64): idiffomix_1.0.0.tgz, r-oldrel (arm64): idiffomix_1.0.0.tgz, r-release (x86_64): idiffomix_1.0.0.tgz, r-oldrel (x86_64): idiffomix_1.0.0.tgz

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