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To install this package, start R and enter:
## try http if https is not available
source("https://bioconductor.org/biocLite.R")
biocLite("GENESIS")
In most cases, you don't need to download the package archive at all.
GENESIS
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GENetic EStimation and Inference in Structured samples (GENESIS): Statistical methods for analyzing genetic data from samples with population structure and/or relatedness
Bioconductor version: Release (3.1)
The GENESIS package provides methodology for estimating, inferring, and accounting for population and pedigree structure in genetic analyses. The current implementation provides functions to perform PC-AiR (Conomos et al., 2015): a Principal Components Analysis with genome-wide SNP genotype data for robust population structure inference in samples with related individuals (known or cryptic).
Author: Matthew P. Conomos and Timothy Thornton
Maintainer: Matthew P. Conomos <mconomos at uw.edu>
Citation (from within R,
enter citation("GENESIS")):
Installation
To install this package, start R and enter:
## try http if https is not available
source("https://bioconductor.org/biocLite.R")
biocLite("GENESIS")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("GENESIS")
| HTML | R Script | Principal Components Analysis in Related Samples (PC-AiR) using the GENESIS Package |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | BiocViews, DimensionReduction, GeneticVariability, Genetics, GenomeWideAssociation, PrincipalComponent, QualityControl, SNP, Software, StatisticalMethod |
| Version | 1.0.0 |
| In Bioconductor since | BioC 3.1 (R-3.2) (< 6 months) |
| License | GPL-3 |
| Depends | GWASTools |
| Imports | |
| LinkingTo | |
| Suggests | gdsfmt, SNPRelate, RUnit, BiocGenerics, knitr |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | GENESIS_1.0.0.tar.gz |
| Windows Binary | GENESIS_1.0.0.zip |
| Mac OS X 10.6 (Snow Leopard) | GENESIS_1.0.0.tgz |
| Mac OS X 10.9 (Mavericks) | GENESIS_1.0.0.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/GENESIS/tree/release-3.1 |
| Package Short Url | http://bioconductor.org/packages/GENESIS/ |
| Package Downloads Report | Download Stats |
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