Summix

DOI: 10.18129/B9.bioc.Summix    

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

Summix: A method to estimate and adjust for population structure in genetic summary data

Bioconductor version: Development (3.15)

This package contains the Summix method for estimating and adjusting for ancestry in genetic summary allele frequency data. The function summix estimates reference ancestry proportions using a mixture model. The adjAF function produces ancestry adjusted allele frequencies for an observed sample with ancestry proportions matching a target person or sample.

Author: Audrey Hendricks [cre], Stoneman Haley [aut]

Maintainer: Audrey Hendricks <audrey.hendricks at ucdenver.edu>

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

Installation

To install this package, start R (version "4.2") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("Summix")

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("Summix")

 

HTML R Script Summix.html
PDF   Reference Manual
Text   NEWS
Text   LICENSE

Details

biocViews Genetics, Software, StatisticalMethod, WholeGenome
Version 2.1.0
In Bioconductor since BioC 3.13 (R-4.1) (0.5 years)
License MIT + file LICENSE
Depends R (>= 4.1)
Imports nloptr, methods
LinkingTo
Suggests rmarkdown, markdown, knitr
SystemRequirements
Enhances
URL
BugReports https://github.com/Bioconductor/Summix/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package Summix_2.1.0.tar.gz
Windows Binary
macOS 10.13 (High Sierra) Summix_2.1.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/Summix
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/Summix
Package Short Url https://bioconductor.org/packages/Summix/
Package Downloads Report Download Stats

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