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LOLA
This is thedevelopment version of LOLA; for the stable release version, seeLOLA.
Locus overlap analysis for enrichment of genomic ranges
Bioconductor version: Development (3.23)
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("LOLA")):Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")# The following initializes usage of Bioc develBiocManager::install(version='devel')BiocManager::install("LOLA")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
| Reference Manual |
Details
| biocViews | ChIPSeq,FunctionalGenomics,GeneRegulation,GeneSetEnrichment,GenomeAnnotation,MethylSeq,Sequencing,Software,SystemsBiology |
| Version | 1.41.0 |
| In Bioconductor since | BioC 3.2 (R-3.2) (10 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
| Suggests | parallel,testthat,knitr,BiocStyle,rmarkdown |
| Linking To | |
| Enhances | simpleCache,qvalue,ggplot2 |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | LOLA_1.41.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/LOLA |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/LOLA |
| Bioc Package Browser | https://code.bioconductor.org/browse/LOLA/ |
| Package Short Url | https://bioconductor.org/packages/LOLA/ |
| Package Downloads Report | Download Stats |