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This is the development version of PanomiR; for the stable release version, see PanomiR.

Detection of miRNAs that regulate interacting groups of pathways

Bioconductor version: Development (3.19)

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 "4.4") and enter:

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

# The following initializes usage of Bioc devel


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 1.7.0
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
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Suggests testthat (>= 3.0.0), BiocStyle, knitr, rmarkdown
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Follow Installation instructions to use this package in your R session.

Source Package PanomiR_1.7.0.tar.gz
Windows Binary PanomiR_1.7.0.zip
macOS Binary (x86_64) PanomiR_1.7.0.tgz
macOS Binary (arm64) PanomiR_1.7.0.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/
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