LOLA
Locus overlap analysis for enrichment of genomic ranges
Bioconductor version: 3.23 · Package version: 1.42.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
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.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("LOLA")Details
| Maintainer | Nathan Sheffield <nathan@code.databio.org> |
| Author | Nathan Sheffield <http://www.databio.org> [aut, cre], Christoph Bock [ctb] |
| License | GPL-3 |
| URL | http://code.databio.org/LOLA |
| Bug Reports | http://github.com/nsheff/LOLA |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | ChIPSeq, FunctionalGenomics, GeneRegulation, GeneSetEnrichment, GenomeAnnotation, MethylSeq, Sequencing, Software, SystemsBiology |
| Package Short Url | https://bioconductor.org/packages/LOLA/ |
Citation
From within R, enter citation("LOLA"):
Nathan Sheffield. LOLA: Locus overlap analysis for enrichment of genomic ranges. doi:10.18129/B9.bioc.LOLA, R package version 1.42.0, https://bioconductor.org/packages/LOLA.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | LOLA_1.42.0.tar.gz |
| Windows binary (x86_64) | LOLA_1.42.0.zip |
| macOS binary (arm64) | LOLA_1.42.0.tgz |
| macOS binary (x86_64) | LOLA_1.42.0.tgz |
Dependencies
Depends: R (>= 3.5.0)
Imports: BiocGenerics, S4Vectors, IRanges, GenomicRanges, data.table, reshape2, utils, stats, methods
Suggests: parallel, XVector, testthat, knitr, BiocStyle, rmarkdown
Enhances: simpleCache, qvalue, ggplot2