To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("http://bioc.ism.ac.jp/biocLite.R")
biocLite("ASAFE")

In most cases, you don't need to download the package archive at all.

ASAFE

DOI: 10.18129/B9.bioc.ASAFE    

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

Ancestry Specific Allele Frequency Estimation

Bioconductor version: Development (3.6)

Given admixed individuals' bi-allelic SNP genotypes and ancestry pairs (where each ancestry can take one of three values) for multiple SNPs, perform an EM algorithm to deal with the fact that SNP genotypes are unphased with respect to ancestry pairs, in order to estimate ancestry-specific allele frequencies for all SNPs.

Author: Qian Zhang <qszhang at uw.edu>

Maintainer: Qian Zhang <qszhang at uw.edu>

Citation (from within R, enter citation("ASAFE")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("http://bioc.ism.ac.jp/biocLite.R")
biocLite("ASAFE")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("ASAFE")

 

PDF R Script ASAFE (Ancestry Specific Allele Frequency Estimation)
PDF   Reference Manual
Text   README
Text   NEWS

Details

biocViews BiomedicalInformatics, ExperimentalDesign, Genetics, GenomeWideAssociation, LinkageDisequilibrium, SNP, Software
Version 1.3.0
In Bioconductor since BioC 3.4 (R-3.3) (1 year)
License Artistic-2.0
Depends R (>= 3.2)
Imports
LinkingTo
Suggests knitr, testthat
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.

Source Package ASAFE_1.3.0.tar.gz
Windows Binary ASAFE_1.3.0.zip
Mac OS X 10.11 (El Capitan) ASAFE_1.3.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/ASAFE
Package Short Url http://bioconductor.org/packages/ASAFE/
Package Downloads Report Download Stats

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