This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see LOLA.
Bioconductor version: 3.13
Provides functions for testing overlap of sets of genomic regions with public and custom region set (genomic ranges) databases. This makes it 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 [ctb]
Maintainer: Nathan Sheffield <nathan at code.databio.org>
Citation (from within R,
enter citation("LOLA")
):
To install this package, start R (version "4.1") and enter:
if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("LOLA")
For older versions of R, please refer to the appropriate Bioconductor release.
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("LOLA")
HTML | R Script | 1. Getting Started with LOLA |
HTML | R Script | 2. Using LOLA Core |
HTML | R Script | 3. Choosing a Universe |
Reference Manual | ||
Text | NEWS |
biocViews | ChIPSeq, FunctionalGenomics, GeneRegulation, GeneSetEnrichment, GenomeAnnotation, MethylSeq, Sequencing, Software, SystemsBiology |
Version | 1.22.0 |
In Bioconductor since | BioC 3.2 (R-3.2) (6 years) |
License | GPL-3 |
Depends | R (>= 2.10) |
Imports | BiocGenerics, S4Vectors, IRanges, GenomicRanges, data.table, reshape2, utils, stats, methods |
LinkingTo | |
Suggests | parallel, testthat, knitr, BiocStyle, rmarkdown |
SystemRequirements | |
Enhances | simpleCache, qvalue, ggplot2 |
URL | http://code.databio.org/LOLA |
BugReports | http://github.com/nsheff/LOLA |
Depends On Me | |
Imports Me | |
Suggests Me | COCOA, DeepBlueR, MAGAR, MIRA, ramr |
Links To Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Source Package | LOLA_1.22.0.tar.gz |
Windows Binary | LOLA_1.22.0.zip |
macOS 10.13 (High Sierra) | LOLA_1.22.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/LOLA |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/LOLA |
Package Short Url | https://bioconductor.org/packages/LOLA/ |
Package Downloads Report | Download Stats |
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