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:

2 exports 9 stars 1.47 score 0 dependencies 4 scripts 345 downloads

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

TargetResultDate
Doc / VignettesOKSep 12 2024
R-4.5-winOKSep 12 2024
R-4.5-linuxOKSep 12 2024
R-4.4-winOKSep 12 2024
R-4.4-macOKSep 12 2024
R-4.3-winOKSep 12 2024
R-4.3-macOKSep 12 2024

Exports:match_makerplot_maker

Dependencies:

PCAmatchR: Match Cases to Controls Based on Genotype Principal Components

Rendered fromvignette.html.asisusingR.rsp::asison Sep 12 2024.

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