To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("ASAFE")
In most cases, you don't need to download the package archive at all.
ASAFE
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Ancestry Specific Allele Frequency Estimation
Bioconductor version: Release (3.5)
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("https://bioconductor.org/biocLite.R")
biocLite("ASAFE")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("ASAFE")
| R Script | ASAFE (Ancestry Specific Allele Frequency Estimation) | |
| Reference Manual | ||
| Text | README | |
| Text | NEWS |
Details
| biocViews | BiomedicalInformatics, ExperimentalDesign, Genetics, GenomeWideAssociation, LinkageDisequilibrium, SNP, Software |
| Version | 1.2.0 |
| 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_1.2.0.tar.gz |
| Windows Binary | ASAFE_1.2.0.zip |
| Mac OS X 10.11 (El Capitan) | ASAFE_1.2.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/ASAFE |
| Package Short Url | http://bioconductor.org/packages/ASAFE/ |
| Package Downloads Report | Download Stats |
Documentation »
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