Package: PCAmatchR 0.3.3

Derek W. Brown

PCAmatchR: Match Cases to Controls Based on Genotype Principal Components

Matches cases to controls based on genotype principal components (PC). In order to produce better results, matches are based on the weighted distance of PCs where the weights are equal to the % variance explained by that PC. A weighted Mahalanobis distance metric (Kidd et al. (1987) <doi:10.1016/0031-3203(87)90066-5>) is used to determine matches.

Authors:Derek W. Brown [aut, cre], Mitchel J. Machiela [aut], Timothy A. Myers [ctb], NCI [cph, fnd]

PCAmatchR_0.3.3.tar.gz
PCAmatchR_0.3.3.zip(r-4.5)PCAmatchR_0.3.3.zip(r-4.4)PCAmatchR_0.3.3.zip(r-4.3)
PCAmatchR_0.3.3.tgz(r-4.4-any)PCAmatchR_0.3.3.tgz(r-4.3-any)
PCAmatchR_0.3.3.tar.gz(r-4.5-noble)PCAmatchR_0.3.3.tar.gz(r-4.4-noble)
PCAmatchR_0.3.3.tgz(r-4.4-emscripten)PCAmatchR_0.3.3.tgz(r-4.3-emscripten)
PCAmatchR.pdf |PCAmatchR.html✨
PCAmatchR/json (API)
NEWS

# Install 'PCAmatchR' in R:
install.packages('PCAmatchR', repos = c('https://machiela-lab.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/machiela-lab/pcamatchr/issues

Datasets:
  • PCs_1000G - First 20 principal components of 2504 individuals from the 1000 Genome Project
  • eigenvalues_1000G - First 20 eigenvalues of 2504 individuals from the 1000 Genome Project
  • eigenvalues_all_1000G - All eigenvalues of 2504 individuals from the 1000 Genome Project

On CRAN:

4.70 score 10 stars 4 scripts 275 downloads 2 exports 0 dependencies

Last updated 2 years agofrom:065900b045. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 11 2024
R-4.5-winOKNov 11 2024
R-4.5-linuxOKNov 11 2024
R-4.4-winOKNov 11 2024
R-4.4-macOKNov 11 2024
R-4.3-winOKNov 11 2024
R-4.3-macOKNov 11 2024

Exports:match_makerplot_maker

Dependencies:

PCAmatchR: Match Cases to Controls Based on Genotype Principal Components

Rendered fromvignette.html.asisusingR.rsp::asison Nov 11 2024.

Last update: 2022-02-22
Started: 2022-02-22