Welcome to the new bioconductor.org!

IntramiRExploreR

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

Predicting Targets for Drosophila Intragenic miRNAs


Bioconductor version: Development (3.19)

Intra-miR-ExploreR, an integrative miRNA target prediction bioinformatics tool, identifies targets combining expression and biophysical interactions of a given microRNA (miR). Using the tool, we have identified targets for 92 intragenic miRs in D. melanogaster, using available microarray expression data, from Affymetrix 1 and Affymetrix2 microarray array platforms, providing a global perspective of intragenic miR targets in Drosophila. Predicted targets are grouped according to biological functions using the DAVID Gene Ontology tool and are ranked based on a biologically relevant scoring system, enabling the user to identify functionally relevant targets for a given miR.

Author: Surajit Bhattacharya and Daniel Cox

Maintainer: Surajit Bhattacharya <sbhattach2 at childrensnational.org>

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

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("IntramiRExploreR")

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("IntramiRExploreR")
IntramiRExploreR HTML R Script
IntramiRExploreR.pdf PDF
Reference Manual PDF

Details

biocViews GeneExpression, GenePrediction, GeneTarget, Microarray, Software, StatisticalMethod
Version 1.25.0
In Bioconductor since BioC 3.6 (R-3.4) (6.5 years)
License GPL-2
Depends R (>= 3.4)
Imports igraph (>= 1.0.1), FGNet(>= 3.0.7), knitr (>= 1.12.3), stats, utils, grDevices, graphics
System Requirements
URL https://github.com/VilainLab/IntramiRExploreR
Bug Reports https://github.com/VilainLab/IntramiRExploreR
See More
Suggests gProfileR, topGO, org.Dm.eg.db, rmarkdown, testthat
Linking To
Enhances
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 IntramiRExploreR_1.25.0.tar.gz
Windows Binary IntramiRExploreR_1.25.0.zip
macOS Binary (x86_64) IntramiRExploreR_1.25.0.tgz
macOS Binary (arm64) IntramiRExploreR_1.25.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/IntramiRExploreR
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/IntramiRExploreR
Bioc Package Browser https://code.bioconductor.org/browse/IntramiRExploreR/
Package Short Url https://bioconductor.org/packages/IntramiRExploreR/
Package Downloads Report Download Stats