IntramiRExploreR
Predicting Targets for Drosophila Intragenic miRNAs
Bioconductor version: Release (3.20)
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("IntramiRExploreR")):
Installation
To install this package, start R (version "4.4") 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 | HTML | R Script |
| IntramiRExploreR.pdf | ||
| Reference Manual |
Details
| biocViews | GeneExpression, GenePrediction, GeneTarget, Microarray, Software, StatisticalMethod |
| Version | 1.28.0 |
| In Bioconductor since | BioC 3.6 (R-3.4) (7 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 | |
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| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | IntramiRExploreR_1.28.0.tar.gz |
| Windows Binary (x86_64) | IntramiRExploreR_1.28.0.zip |
| macOS Binary (x86_64) | IntramiRExploreR_1.28.0.tgz |
| macOS Binary (arm64) | IntramiRExploreR_1.27.0.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 |