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 |
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