OGRE
Calculate, visualize and analyse overlap between genomic regions
Bioconductor version: 3.23 · Package version: 1.16.0
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.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("OGRE") Details
| Maintainer | Sven Berres <svenbioinf@gmail.com> |
| Author | Sven Berres [aut, cre], Jörg Gromoll [ctb], Marius Wöste [ctb], Sarah Sandmann [ctb], Sandra Laurentino [ctb] |
| License | Artistic-2.0 |
| URL | https://github.com/svenbioinf/OGRE/ |
| Bug Reports | https://github.com/svenbioinf/OGRE/issues |
| Downloads rank | 248 |
| Source branch | RELEASE_3_23 |
| biocViews | Annotation, BiologicalQuestion, Metagenomics, Sequencing, Software, Visualization, WorkflowStep |
Documentation
Download
Dependencies
Depends: R (>= 4.2.0), S4Vectors
Imports: GenomicRanges, methods, data.table, assertthat, ggplot2, Gviz, IRanges, AnnotationHub, grDevices, stats, Seqinfo, GenomeInfoDb, shiny, shinyFiles, DT, rtracklayer, shinydashboard, shinyBS, tidyr
Suggests: testthat (>= 3.0.0), knitr (>= 1.36), rmarkdown (>= 2.11)