To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("LOLA")

In most cases, you don't need to download the package archive at all.

LOLA

 

   

Location overlap analysis for enrichment of genomic ranges

Bioconductor version: Release (3.5)

Provides functions for testing overlap of sets of genomic regions with public and custom region set (genomic ranges) databases. This make is possible to do automated enrichment analysis for genomic region sets, thus facilitating interpretation of functional genomics and epigenomics data.

Author: Nathan Sheffield <http://www.databio.org> [aut, cre], Christoph Bock [cre]

Maintainer: Nathan Sheffield <nathan at code.databio.org>

Citation (from within R, enter citation("LOLA")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("LOLA")

Documentation

HTML R Script Choosing a LOLA Universe
HTML R Script Getting Started with LOLA
HTML R Script Using LOLA Core
PDF   Reference Manual
Text   NEWS

Details

biocViews ChIPSeq, FunctionalGenomics, GeneRegulation, GeneSetEnrichment, GenomeAnnotation, MethylSeq, Sequencing, Software, SystemsBiology
Version 1.6.0
In Bioconductor since BioC 3.2 (R-3.2) (1.5 years)
License GPL-3
Depends
Imports BiocGenerics, S4Vectors, IRanges, GenomicRanges, data.table
LinkingTo
Suggests knitr, parallel, testthat
SystemRequirements
Enhances simpleCache, qvalue
URL http://databio.org/lola
BugReports http://github.com/sheffien/LOLA
Depends On Me
Imports Me
Suggests Me DeepBlueR
Build Report  

Package Archives

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

Package Source LOLA_1.6.0.tar.gz
Windows Binary LOLA_1.6.0.zip
Mac OS X 10.11 (El Capitan) LOLA_1.6.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/LOLA/tree/release-3.5
Package Short Url http://bioconductor.org/packages/LOLA/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: