loci2path
This is thereleased version of loci2path; for the devel version, seeloci2path.
Loci2path: regulatory annotation of genomic intervals based on tissue-specific expression QTLs
Bioconductor version: Release (3.22)
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 (from within R, enter
citation("loci2path")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("loci2path")For older versions of R, please refer to the appropriateBioconductor 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 | 1.30.0 |
| In Bioconductor since | BioC 3.7 (R-3.5) (7.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.5) |
| 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
FollowInstallation instructions to use this package in your R session.
| Source Package | loci2path_1.30.0.tar.gz |
| Windows Binary (x86_64) | loci2path_1.30.0.zip |
| macOS Binary (x86_64) | loci2path_1.30.0.tgz |
| macOS Binary (arm64) | loci2path_1.30.0.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 |