loci2path
This package is for version 3.15 of Bioconductor; for the stable, up-to-date release version, see loci2path.
Loci2path: regulatory annotation of genomic intervals based on tissue-specific expression QTLs
Bioconductor version: 3.15
loci2path performs statistics-rigorous enrichment analysis of eQTLs in genomic regions of interest. Using eQTL collections provided by the Genotype-Tissue Expression (GTEx) project and pathway collections from MSigDB.
Author: Tianlei Xu
Maintainer: Tianlei Xu <tianlei.xu at emory.edu>
citation("loci2path")
):
Installation
To install this package, start R (version "4.2") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("loci2path")
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("loci2path")
loci2path | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | BioCarta, Coverage, FunctionalGenomics, GeneExpression, GeneSetEnrichment, Genetics, Sequencing, Software |
Version | 1.16.0 |
In Bioconductor since | BioC 3.7 (R-3.5) (6 years) |
License | Artistic-2.0 |
Depends | R (>= 3.5.0) |
Imports | pheatmap, wordcloud, RColorBrewer, data.table, methods, grDevices, stats, graphics, GenomicRanges, BiocParallel, S4Vectors |
System Requirements | |
URL | https://github.com/StanleyXu/loci2path |
Bug Reports | https://github.com/StanleyXu/loci2path/issues |
See More
Suggests | BiocStyle, knitr, rmarkdown |
Linking To | |
Enhances | |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | loci2path_1.16.0.tar.gz |
Windows Binary | loci2path_1.16.0.zip |
macOS Binary (x86_64) | loci2path_1.16.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/loci2path |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/loci2path |
Bioc Package Browser | https://code.bioconductor.org/browse/loci2path/ |
Package Short Url | https://bioconductor.org/packages/loci2path/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.15 | Source Archive |