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Bioconductor - LOLA

LOLA

This is the released version of LOLA; for the devel version, see LOLA.

Locus overlap analysis for enrichment of genomic ranges

Bioconductor version: Release (3.21)

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")): Installation

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


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

BiocManager::install("LOLA")

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("LOLA")
Details biocViews ChIPSeq, FunctionalGenomics, GeneRegulation, GeneSetEnrichment, GenomeAnnotation, MethylSeq, Sequencing, Software, SystemsBiology Version 1.38.0 In Bioconductor since BioC 3.2 (R-3.2) (9.5 years) License GPL-3 Depends R (>= 3.5.0) Imports BiocGenerics, S4Vectors, IRanges, GenomicRanges, data.table, reshape2, utils, stats, methods System Requirements URL http://code.databio.org/LOLA Bug Reports http://github.com/nsheff/LOLA See More Package Archives

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

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