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Showing content from https://www.bioconductor.org/packages/devel/bioc/html/../../bioc/html/gwascat.html below:

Bioconductor - gwascat (development version)

gwascat

This is the development version of gwascat; for the stable release version, see gwascat.

representing and modeling data in the EMBL-EBI GWAS catalog

Bioconductor version: Development (3.22)

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 "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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 2.41.1 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 See More 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

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

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