gwascat
This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see gwascat.
representing and modeling data in the EMBL-EBI GWAS catalog
Bioconductor version: 3.8
Represent and model data in the EMBL-EBI GWAS catalog.
Author: VJ Carey <stvjc at channing.harvard.edu>
Maintainer: VJ Carey <stvjc at channing.harvard.edu>
Citation (from within R, enter
citation("gwascat")
):
Installation
To install this package, start R (version "3.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("gwascat")
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("gwascat")
gwascat -- exploring NHGRI GWAS catalog | R Script | |
gwascat -- GRanges for GWAS hits in EBI catalog | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | Genetics, Software |
Version | 2.14.0 |
In Bioconductor since | BioC 2.10 (R-2.15) (12 years) |
License | Artistic-2.0 |
Depends | R (>= 3.5.0), Homo.sapiens |
Imports | methods, BiocGenerics, S4Vectors(>= 0.9.25), IRanges, GenomeInfoDb, GenomicRanges(>= 1.29.6), snpStats, Biostrings, Rsamtools, rtracklayer, gQTLstats, Gviz, VariantAnnotation, AnnotationHub, AnnotationDbi, GenomicFeatures, graph, ggbio, ggplot2, SummarizedExperiment |
System Requirements | |
URL |
See More
Suggests | DO.db, DT, utils, knitr, RBGL, RUnit |
Linking To | |
Enhances | SNPlocs.Hsapiens.dbSNP144.GRCh37 |
Depends On Me | liftOver, vtpnet |
Imports Me | |
Suggests Me | GenomicScores, gQTLBase, gQTLstats, grasp2db, hmdbQuery, TFutils |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | gwascat_2.14.0.tar.gz |
Windows Binary | gwascat_2.14.0.zip |
Mac OS X 10.11 (El Capitan) | gwascat_2.14.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/gwascat |
Source Repository (Developer Access) | git clone [email protected]:packages/gwascat |
Bioc Package Browser | https://code.bioconductor.org/browse/gwascat/ |
Package Short Url | https://bioconductor.org/packages/gwascat/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.8 | Source Archive |