IntramiRExploreR

DOI: 10.18129/B9.bioc.IntramiRExploreR    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see IntramiRExploreR.

Predicting Targets for Drosophila Intragenic miRNAs

Bioconductor version: 3.8

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 <sbhattacharya3 at student.gsu.edu>

Installation

To install this package, start R (version "3.5") and enter:

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

 

HTML	R Script	IntramiRExploreR
PDF		Reference Manual

Details

biocViews	GeneExpression, GenePrediction, GeneTarget, Microarray, Software, StatisticalMethod
Version	1.4.0
In Bioconductor since	BioC 3.6 (R-3.4) (1.5 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
LinkingTo
Suggests	RDAVIDWebService, gProfileR, topGO, KEGGprofile, org.Dm.eg.db, rmarkdown, testthat
SystemRequirements
Enhances
URL	https://github.com/sbhattacharya3/IntramiRExploreR/
BugReports	https://github.com/sbhattacharya3/IntramiRExploreR/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	IntramiRExploreR_1.4.0.tar.gz
Windows Binary	IntramiRExploreR_1.4.0.zip
Mac OS X 10.11 (El Capitan)	IntramiRExploreR_1.4.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/IntramiRExploreR
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/IntramiRExploreR
Package Short Url	http://bioconductor.org/packages/IntramiRExploreR/
Package Downloads Report	Download Stats