GWASTools
This is the development version of GWASTools; for the stable release version, see GWASTools.
Tools for Genome Wide Association Studies
Bioconductor version: Development (3.21)
Classes for storing very large GWAS data sets and annotation, and functions for GWAS data cleaning and analysis.
Author: Stephanie M. Gogarten [aut], Cathy Laurie [aut], Tushar Bhangale [aut], Matthew P. Conomos [aut], Cecelia Laurie [aut], Michael Lawrence [aut], Caitlin McHugh [aut], Ian Painter [aut], Xiuwen Zheng [aut], Jess Shen [aut], Rohit Swarnkar [aut], Adrienne Stilp [aut], Sarah Nelson [aut], David Levine [aut], Sonali Kumari [ctb] (Converted vignettes from Sweave to RMarkdown / HTML.), Stephanie M. Gogarten [cre]
Maintainer: Stephanie M. Gogarten <sdmorris at uw.edu>
citation("GWASTools")):
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("GWASTools")
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("GWASTools")| Data formats in GWASTools | R Script | |
| GWAS Data Cleaning | R Script | |
| Preparing Affymetrix Data | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | GeneticVariability, Microarray, QualityControl, SNP, Software |
| Version | 1.53.0 |
| In Bioconductor since | BioC 2.9 (R-2.14) (13 years) |
| License | Artistic-2.0 |
| Depends | Biobase |
| Imports | graphics, stats, utils, methods, gdsfmt, DBI, RSQLite, GWASExactHW, DNAcopy, survival, sandwich, lmtest, logistf, quantsmooth, data.table |
| System Requirements | |
| URL | https://github.com/smgogarten/GWASTools |
See More
| Suggests | ncdf4, GWASdata, BiocGenerics, RUnit, Biostrings, GenomicRanges, IRanges, SNPRelate, snpStats, S4Vectors, VariantAnnotation, parallel, BiocStyle, knitr |
| Linking To | |
| Enhances | |
| Depends On Me | mBPCR, GWASdata, snplinkage |
| Imports Me | GENESIS, gwasurvivr |
| Suggests Me | podkat |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | GWASTools_1.53.0.tar.gz |
| Windows Binary (x86_64) | GWASTools_1.53.0.zip (64-bit only) |
| macOS Binary (x86_64) | GWASTools_1.53.0.tgz |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/GWASTools |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/GWASTools |
| Bioc Package Browser | https://code.bioconductor.org/browse/GWASTools/ |
| Package Short Url | https://bioconductor.org/packages/GWASTools/ |
| Package Downloads Report | Download Stats |