Summix
This package is for version 3.18 of Bioconductor; for the stable, up-to-date release version, see Summix.
Summix: A method to estimate and adjust for population structure in genetic summary data
Bioconductor version: 3.18
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("Summix")
):
Installation
To install this package, start R (version "4.3") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
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")
Summix.html | HTML | R Script |
Reference Manual | ||
NEWS | Text | |
LICENSE | Text |
Details
biocViews | Genetics, Software, StatisticalMethod, WholeGenome |
Version | 2.8.0 |
In Bioconductor since | BioC 3.13 (R-4.1) (3 years) |
License | MIT + file LICENSE |
Depends | R (>= 4.1) |
Imports | nloptr, methods |
System Requirements | |
URL | |
Bug Reports | https://github.com/Bioconductor/Summix/issues |
See More
Suggests | rmarkdown, markdown, knitr |
Linking To | |
Enhances | |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | Summix_2.8.0.tar.gz |
Windows Binary | Summix_2.8.0.zip |
macOS Binary (x86_64) | Summix_2.8.0.tgz |
macOS Binary (arm64) | Summix_2.8.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/Summix |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/Summix |
Bioc Package Browser | https://code.bioconductor.org/browse/Summix/ |
Package Short Url | https://bioconductor.org/packages/Summix/ |
Package Downloads Report | Download Stats |