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Bioconductor - OGRE (development version)

OGRE

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

Calculate, visualize and analyse overlap between genomic regions

Bioconductor version: Development (3.22)

OGRE calculates overlap between user defined genomic region datasets. Any regions can be supplied i.e. genes, SNPs, or reads from sequencing experiments. Key numbers help analyse the extend of overlaps which can also be visualized at a genomic level.

Author: Sven Berres [aut, cre], Jörg Gromoll [ctb], Marius Wöste [ctb], Sarah Sandmann [ctb], Sandra Laurentino [ctb]

Maintainer: Sven Berres <svenbioinf at gmail.com>

Citation (from within R, enter citation("OGRE")): Installation

To install this package, start R (version "4.5") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("OGRE")

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("OGRE")
Details biocViews Annotation, BiologicalQuestion, Metagenomics, Sequencing, Software, Visualization, WorkflowStep Version 1.13.0 In Bioconductor since BioC 3.15 (R-4.2) (3 years) License Artistic-2.0 Depends R (>= 4.2.0), S4Vectors Imports GenomicRanges, methods, data.table, assertthat, ggplot2, Gviz, IRanges, AnnotationHub, grDevices, stats, GenomeInfoDb, shiny, shinyFiles, DT, rtracklayer, shinydashboard, shinyBS, tidyr System Requirements URL https://github.com/svenbioinf/OGRE/ Bug Reports https://github.com/svenbioinf/OGRE/issues See More Package Archives

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

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