Welcome to the new bioconductor.org!


Detection of miRNAs that regulate interacting groups of pathways

Bioconductor version: Release (3.18)

PanomiR is a package to detect miRNAs that target groups of pathways from gene expression data. This package provides functionality for generating pathway activity profiles, determining differentially activated pathways between user-specified conditions, determining clusters of pathways via the PCxN package, and generating miRNAs targeting clusters of pathways. These function can be used separately or sequentially to analyze RNA-Seq data.

Author: Pourya Naderi [aut, cre], Yue Yang (Alan) Teo [aut], Ilya Sytchev [aut], Winston Hide [aut]

Maintainer: Pourya Naderi <pouryany at gmail.com>

Citation (from within R, enter citation("PanomiR")):


To install this package, start R (version "4.3") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

PanomiR Tutorial HTML R Script
Reference Manual PDF


biocViews GeneExpression, GeneSetEnrichment, GeneTarget, Pathways, Software, miRNA
Version 1.6.0
In Bioconductor since BioC 3.15 (R-4.2) (2 years)
License MIT + file LICENSE
Depends R (>= 4.2.0)
Imports clusterProfiler, dplyr, forcats, GSEABase, igraph, limma, metap, org.Hs.eg.db, parallel, preprocessCore, RColorBrewer, rlang, tibble, withr, utils
System Requirements
URL https://github.com/pouryany/PanomiR
Bug Reports https://github.com/pouryany/PanomiR/issues
See More
Suggests testthat (>= 3.0.0), BiocStyle, knitr, rmarkdown
Linking To
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package PanomiR_1.6.0.tar.gz
Windows Binary PanomiR_1.6.0.zip
macOS Binary (x86_64) PanomiR_1.6.0.tgz
macOS Binary (arm64) PanomiR_1.6.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/PanomiR
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/PanomiR
Bioc Package Browser https://code.bioconductor.org/browse/PanomiR/
Package Short Url https://bioconductor.org/packages/PanomiR/
Package Downloads Report Download Stats