Package: Jacquard 1.0.2

Jacquard: Estimation of Jacquard's Genetic Identity Coefficients

Contains procedures to estimate the nine condensed Jacquard genetic identity coefficients (Jacquard, 1974) <doi:10.1007/978-3-642-88415-3> by constrained least squares (Graffelman et al., 2024) <doi:10.1101/2024.03.25.586682> and by the method of moments (Csuros, 2014) <doi:10.1016/j.tpb.2013.11.001>. These procedures require previous estimation of the allele frequencies. Functions are supplied that estimate relationship parameters that derive from the Jacquard coefficients, such as individual inbreeding coefficients and kinship coefficients.

Authors:Jan Graffelman [aut, cre]

Jacquard_1.0.2.tar.gz
Jacquard_1.0.2.zip(r-4.5)Jacquard_1.0.2.zip(r-4.4)Jacquard_1.0.2.zip(r-4.3)
Jacquard_1.0.2.tgz(r-4.5-any)Jacquard_1.0.2.tgz(r-4.4-any)Jacquard_1.0.2.tgz(r-4.3-any)
Jacquard_1.0.2.tar.gz(r-4.5-noble)Jacquard_1.0.2.tar.gz(r-4.4-noble)
Jacquard_1.0.2.tgz(r-4.4-emscripten)Jacquard_1.0.2.tgz(r-4.3-emscripten)
Jacquard.pdf |Jacquard.html
Jacquard/json (API)

# Install 'Jacquard' in R:
install.packages('Jacquard', repos = c('https://jangraffelman.r-universe.dev', 'https://cloud.r-project.org'))
Datasets:
  • DeltaSimulatedPedigree - Estimates of Jacquard Coefficients for Simulated SNP data according to a Pedigree
  • GTC - Joint Genotype Counts according to a Pedigree
  • SimulatedPedigree - Simulated SNP data according to a Pedigree

On CRAN:

Conda:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

2.00 score 138 downloads 10 exports 2 dependencies

Last updated 7 months agofrom:93d7be3530. Checks:9 OK. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKMar 17 2025
R-4.5-winOKMar 17 2025
R-4.5-macOKMar 17 2025
R-4.5-linuxOKMar 17 2025
R-4.4-winOKMar 17 2025
R-4.4-macOKMar 17 2025
R-4.4-linuxOKMar 17 2025
R-4.3-winOKMar 17 2025
R-4.3-macOKMar 17 2025

Exports:BoxplotDeltaBoxplotThetaCalculateMomCalculateThetaDeltaPairJacquard.clsJointGenotypeCountsmafvectorMakeMPairwiseList

Dependencies:Rsolnptruncnorm

The Jacquard package

Rendered fromJacquard.Rmdusingknitr::rmarkdownon Mar 17 2025.

Last update: 2024-09-18
Started: 2024-09-18