recipe bioconductor-genesis

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, Gen Epi) and PC-Relate (Conomos et al., 2016, AJHG). PC-AiR performs a Principal Components Analysis on genome-wide SNP data for the detection of population structure in a sample that may contain known or cryptic relatedness. Unlike standard PCA, PC-AiR accounts for relatedness in the sample to provide accurate ancestry inference that is not confounded by family structure. PC-Relate uses ancestry representative principal components to adjust for population structure/ancestry and accurately estimate measures of recent genetic relatedness such as kinship coefficients, IBD sharing probabilities, and inbreeding coefficients. Additionally, functions are provided to perform efficient variance component estimation and mixed model association testing for both quantitative and binary phenotypes.

Homepage

https://bioconductor.org/packages/3.9/bioc/html/GENESIS.html

License

GPL-3

Recipe

/bioconductor-genesis/meta.yaml

package bioconductor-genesis

(downloads) docker_bioconductor-genesis

Versions

2.14.3-0, 2.12.0-0

Depends
Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-genesis

and update with:

conda update bioconductor-genesis

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-genesis:<tag>

(see bioconductor-genesis/tags for valid values for <tag>)