gwascat

This is thedevelopment version of gwascat; for the stable release version, seegwascat.

representing and modeling data in the EMBL-EBI GWAS catalog

DOI: 10.18129/B9.bioc.gwascat

Bioconductor version: Development (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, entercitation("gwascat")):

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("gwascat")

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("gwascat")

gwascat -- GRanges for GWAS hits in EBI catalog	HTML	R Script
gwascat: structuring and querying the NHGRI GWAS catalog	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Genetics,Software
Version	2.43.0
In Bioconductor since	BioC 2.10 (R-2.15) (13.5 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	vtpnet,liftOver
Imports Me	circRNAprofiler
Suggests Me	GenomicScores,hmdbQuery,ldblock,parglms,TFutils,grasp2db
Links To Me
Build Report	Build Report

Package Archives

FollowInstallation instructions to use this package in your R session.

Source Package	gwascat_2.43.0.tar.gz
Windows Binary (x86_64)
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository	git clone https://git.bioconductor.org/packages/gwascat
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/gwascat
Bioc Package Browser	https://code.bioconductor.org/browse/gwascat/
Package Short Url	https://bioconductor.org/packages/gwascat/
Package Downloads Report	Download Stats

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