Multi-omic Pathway Analysis of Cells (MPAC) is an R package that interprets multi-omic data through the prior knowledge of biological pathways. The workflow of MPAC contains several steps, which are shown in the figure below. MPAC has a vignette that describes each function in details.
Start R and enter:
devtools::install_github('pliu55/MPAC')
Start R and enter:
if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("MPAC")
To explore key results reported in the MPAC manuscript as well as associated results please check out this R Shiny app.
The runPrd() function requires an external software named PARADIGM, which is only available for Linux and MacOS. For details, please see the Required external software section in vignette's Run PARADIGM: runPrd().
MPAC: a computational framework for inferring cancer pathway activities from multi-omic data. Peng Liu, David Page, Paul Ahlquist, Irene M. Ong, Anthony Gitter. bioRxiv, 2024.06.15.599113. doi: https://doi.org/10.1101/2024.06.15.599113
Got a question? Please report it at the issues tab in this repository.
MPAC is licensed under the GNU General Public License v3.
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