nadiv - (Non)Additive Genetic Relatedness Matrices
Constructs (non)additive genetic relationship matrices, and their inverses, from a pedigree to be used in linear mixed effect models (A.K.A. the 'animal model'). Also includes other functions to facilitate the use of animal models. Some functions have been created to be used in conjunction with the R package 'asreml' for the 'ASReml' software, which can be obtained upon purchase from 'VSN' international (<https://vsni.co.uk/software/asreml>).
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cpp
7.44 score 23 stars 3 dependents 202 scripts 1.3k downloadsICC - Facilitating Estimation of the Intraclass Correlation Coefficient
Assist in the estimation of the Intraclass Correlation Coefficient (ICC) from variance components of a one-way analysis of variance and also estimate the number of individuals or groups necessary to obtain an ICC estimate with a desired confidence interval width.
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6.70 score 6 stars 2 dependents 265 scripts 1.0k downloadsgremlin - Mixed-Effects REML Incorporating Generalized Inverses
Fit linear mixed-effects models using restricted (or residual) maximum likelihood (REML) and with generalized inverse matrices to specify covariance structures for random effects. In particular, the package is suited to fit quantitative genetic mixed models, often referred to as 'animal models'. Implements the average information algorithm as the main tool to maximize the restricted log-likelihood, but with other algorithms available.
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average-informationlinear-mixed-modelsmaximum-likelihoodmixed-modelscpp
3.98 score 6 stars 16 scripts 568 downloads