PanomiR

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")):

Installation

To install this package, start R (version "4.4") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("PanomiR")

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

Documentation


Reference Manual	PDF

Need some help? Ask on the Bioconductor Support site!

Details

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

Suggests	testthat (>= 3.0.0), BiocStyle, knitr, rmarkdown
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Build Report	Build Report

Package Archives

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

Source Package
Windows Binary
macOS Binary (x86_64)	PanomiR_1.7.0.tgz
macOS Binary (arm64)
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