IntramiRExploreR

DOI: 10.18129/B9.bioc.IntramiRExploreR    

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

Predicting Targets for Drosophila Intragenic miRNAs

Bioconductor version: Release (3.13)

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>

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

Installation

To install this package, start R (version "4.1") 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

PDF   Reference Manual

Details

biocViews GeneExpression, GenePrediction, GeneTarget, Microarray, Software, StatisticalMethod
Version 1.14.0
In Bioconductor since BioC 3.6 (R-3.4) (3.5 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
Windows Binary
macOS 10.13 (High Sierra)
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 https://bioconductor.org/packages/IntramiRExploreR/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: