MOSClip
is a topological pathway analysis tool to test
survival association of pathways in a multi-omic framework.
MOSClip
R package implements a statistical approach able
to integrate multi-omic data and look for survival associated gene
modules. It integrates multiple omics - trascriptomics, methylomics,
genomic mutations, and genomic copy number variations - using various
data dimensionality reduction strategies and multivariate models.
Exploiting graph theory, pathways can be decomposed into their connected
components, that we call modules. The analysis can then be performed at
the level of entire pathways or pathway modules. MOSClip
pathway analysis serves two primary purposes: testing the survival
association of pathways or modules using the Cox proportional hazard
model, and conducting a two-class analysis with a generalized linear
model. Additionally, the package offers valuable graphical tools to
visualize and interpret the results.
You can install MOSClip
directly from GitHub writing the
following commands in your R console.
# Install devtools if not already installed
if (!requireNamespace("devtools", quietly = TRUE)) {
install.packages("devtools")
}
# Install the package from GitHub
devtools::install_github("CaluraLab/MOSClip")
Paolo Martini, Monica Chiogna, Enrica Calura, and Chiara Romualdi. 2019. “MOSClip: Multi-Omic and Survival Pathway Analysis for the Identification of Survival Associated Gene and Modules.” Nucleic Acids Research 47 (14): e80. https://doi.org/10.1093/nar/gkz324