gwascat

This is the released version of gwascat; for the devel version, see gwascat.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.14, 2.13, 2.12, 2.11, 2.10

representing and modeling data in the EMBL-EBI GWAS catalog

Bioconductor version: Release (3.23)

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")):

VJ Carey. gwascat: representing and modeling data in the EMBL-EBI GWAS catalog. doi:10.18129/B9.bioc.gwascat, R package version 2.44.0, https://bioconductor.org/packages/gwascat.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") 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: structuring and querying the NHGRI GWAS catalog	HTML	R Script
gwascat -- GRanges for GWAS hits in EBI catalog	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Genetics, Software
Version	2.44.0
In Bioconductor since	BioC 2.10 (R-2.15) (14.5 years)
License	Artistic-2.0
Depends	R (>= 4.1.0), methods
Imports	S4Vectors (>= 0.9.25), IRanges, Seqinfo, GenomeInfoDb, GenomicRanges (>= 1.29.6), GenomicFeatures, readr, Biostrings, AnnotationDbi, BiocFileCache, snpStats, VariantAnnotation, AnnotationHub, data.table, tibble
System Requirements
URL

Suggests	DO.db, DT, knitr, RBGL, testthat, rmarkdown, dplyr, Gviz, Rsamtools, rtracklayer, graph, ggbio, DelayedArray, TxDb.Hsapiens.UCSC.hg19.knownGene, org.Hs.eg.db, BiocStyle
Linking To
Enhances	SNPlocs.Hsapiens.dbSNP144.GRCh37
Depends On Me	liftOver, vtpnet
Imports Me	circRNAprofiler
Suggests Me	GenomicScores, grasp2db, hmdbQuery, ldblock, parglms, TFutils
Links To Me
Build Report	Build Report, r-universe

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	gwascat_2.44.0.tar.gz
Windows Binary (x86_64)	gwascat_2.44.0.zip
macOS Binary (big-sur-x86_64)	gwascat_2.44.0.tgz
macOS Binary (sonoma-arm64)	gwascat_2.44.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/gwascat
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/gwascat
Package Short Url	https://bioconductor.org/packages/gwascat/
Package Downloads Report	Download Stats