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 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 |
| Old Source Packages for BioC 3.8 | Source Archive |