# Calculate, visualize and analyse overlap between genomic regions

## Documentation for package ‘OGRE’ version 1.4.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

OGRE-package | OGRE package to calculate, analyze and visiualize overlap between annotated genomic region datasets
addDataSetFromHub | Add dataSet from AnnotationHub
addGRanges | Add GenomicRanges
covPlot | Coverage plot
extendGRanges | Extend a GRanges object
extractPromoters | Extract promoter
fOverlaps | Find overlaps
gvizPlot | Generate Gviz plot
listPredefinedDataSets | List predefined datasets
loadAnnotations | Load annotation datasets
makeExampleGRanges | Make an example GRanges dataset
makeExampleOGREDataSet | Make a example OGRE dataset
OGREDataSet | BuildOGREDataSet
OGREDataSetFromDir | BuildOGREDataSetFromDir
plotHist | Plot histogram
readDataSetFromFolder | Read dataset(s) from folder
SHREC | SHREC SHiny interface for REgion Comparison
subsetGRanges | Subset a GRanges object
summarizeOverlap | Calculates min/max/average overlap
sumPlot | Generate summary plot