IntramiRExploreR

This is the released version of IntramiRExploreR; for the devel version, see IntramiRExploreR.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6

Predicting Targets for Drosophila Intragenic miRNAs

Bioconductor version: Release (3.23)

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")):

Surajit Bhattacharya and Daniel Cox. IntramiRExploreR: Predicting Targets for Drosophila Intragenic miRNAs. doi:10.18129/B9.bioc.IntramiRExploreR, R package version 1.34.0, https://bioconductor.org/packages/IntramiRExploreR.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

if (!require("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")

IntramiRExploreR.pdf	PDF
IntramiRExploreR	HTML	R Script
Reference Manual	PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	GeneExpression, GenePrediction, GeneTarget, Microarray, Software, StatisticalMethod
Version	1.34.0
In Bioconductor since	BioC 3.6 (R-3.4) (9 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

Suggests	gProfileR, topGO, org.Dm.eg.db, rmarkdown, testthat
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Build Report	Build Report, r-universe

Package Archives

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

Source Package	IntramiRExploreR_1.34.0.tar.gz
Windows Binary (x86_64)	IntramiRExploreR_1.34.0.zip
macOS Binary (big-sur-x86_64)	IntramiRExploreR_1.34.0.tgz
macOS Binary (sonoma-arm64)	IntramiRExploreR_1.34.0.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	https://bioconductor.org/packages/IntramiRExploreR/
Package Downloads Report	Download Stats