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gwascat

representing and modeling data in the EMBL-EBI GWAS catalog

Bioconductor version: Release (3.17)

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 "4.3") 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 -- 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

Details

biocViews Genetics, Software
Version 2.32.0
In Bioconductor since BioC 2.10 (R-2.15) (11.5 years)
License Artistic-2.0
Depends R (>= 3.5.0), methods
Imports S4Vectors(>= 0.9.25), IRanges, GenomeInfoDb, GenomicRanges(>= 1.29.6), GenomicFeatures, readr, Biostrings, AnnotationDbi, BiocFileCache, snpStats, VariantAnnotation, AnnotationHub
Linking To
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
System Requirements
Enhances SNPlocs.Hsapiens.dbSNP144.GRCh37
URL
See More
Depends On Me liftOver, vtpnet
Imports Me circRNAprofiler
Suggests Me GenomicScores, grasp2db, hmdbQuery, ldblock, parglms, TFutils
Links To Me
Build Report  

Package Archives

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

Source Package gwascat_2.32.0.tar.gz
Windows Binary gwascat_2.32.0.zip
macOS Binary (x86_64) gwascat_2.32.0.tgz
macOS Binary (arm64) gwascat_2.32.0.tgz
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