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MetaPhOR
This is the released version of MetaPhOR; for the devel version, see MetaPhOR.
Metabolic Pathway Analysis of RNA
Bioconductor version: Release (3.22)
MetaPhOR was developed to enable users to assess metabolic dysregulation using transcriptomic-level data (RNA-sequencing and Microarray data) and produce publication-quality figures. A list of differentially expressed genes (DEGs), which includes fold change and p value, from DESeq2 or limma, can be used as input, with sample size for MetaPhOR, and will produce a data frame of scores for each KEGG pathway. These scores represent the magnitude and direction of transcriptional change within the pathway, along with estimated p-values.MetaPhOR then uses these scores to visualize metabolic profiles within and between samples through a variety of mechanisms, including: bubble plots, heatmaps, and pathway models.
Author: Emily Isenhart [aut, cre], Spencer Rosario [aut]
Maintainer: Emily Isenhart <emily.isenhart at roswellpark.org>
citation("MetaPhOR")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("MetaPhOR")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("MetaPhOR")
Details
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Follow Installation instructions to use this package in your R session.