Package: dmm 3.1-1

dmm: Dyadic Mixed Model for Pedigree Data

Mixed model analysis for quantitative genetics with multi-trait responses and pedigree-based partitioning of individual variation into a range of environmental and genetic variance components for individual and maternal effects. Method documented in dmmOverview.pdf; dmm is an implementation of dispersion mean model described by Searle et al. (1992) "Variance Components", Wiley, NY. 'DMM' can do 'MINQUE', 'bias-corrected-ML', and 'REML' variance component estimates.

Authors:Neville Jackson [aut, cre]

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dmm.pdf |dmm.html✨
dmm/json (API)

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

On CRAN:

Conda-Forge:

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

2.74 score 2 stars 71 scripts 1.9k downloads 16 exports 7 dependencies

Last updated 10 days agofrom:570420faa0. Checks:8 OK. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKFeb 25 2025
R-4.5-winOKFeb 25 2025
R-4.5-macOKFeb 25 2025
R-4.5-linuxOKFeb 25 2025
R-4.4-winOKFeb 25 2025
R-4.4-macOKFeb 25 2025
R-4.3-winOKFeb 25 2025
R-4.3-macOKFeb 25 2025

Exports:chartodeccondense.dmmarraycondense.dmmblockarraycsummarydmmgprintgresponsegsummarymake.countarraymake.ctablemake.dmmobjmdfpedcheckpedrenumunfactorwarcolak.convert

Dependencies:DEoptimRlatticeMASSMatrixnadivplsrobustbase

Readme and manuals

Help Manual

Help pageTopics
Dyadic mixed model analysis for pedigree datadmm-package
Convert a vector from character to decimal numberschartodec
Condense an object of type 'dmmarray' to an object of type 'dmm'condense.dmmarray
Condense an object of type 'dmmblockarray' to an object of type 'dmm'condense.dmmblockarray
Make summary tables of (co)variance component estimates sorted into class-specific classes for a dmm object.csummary csummary.dmm
Fit a dyadic mixed model to pedigree datadmm dmm.default
A balanced dataset with eight individuals.dt8bal.df
Generic function for printing genetic parameters contained in an object of class 'dmm'.gprint
Print method for genetic parameters contained in an object of class 'dmm'.gprint.dmm
Compute response to selection, given phenotypic selection differentials.gresponse gresponse.dmm
Make summary tables of genetic parameters for a dmm objectgsummary gsummary.dmm
Harvey datasetharv101.df
Count the number of observations in a dataframe or an 'mdf' object for all traitpairs in the supplied list of traits.make.countarray
Generates a list of vectors containing sets of variance component namesmake.ctable
Construct an object of class 'dmm' from user-supplied datamake.dmmobj
Prepare a dataframe for use with dmm functionmdf
Australian Merino sheep research datasetmerino.df
Checks that the Id, SId, and DId columns of a dataframe are valid for function 'dmm()'.pedcheck
Renumbers the Id, SId, and DId columns of a dataframepedrenum
Plot residuals from fitting dyadic modelplot.dmm
Print method for object of class 'csummary.dmm'.print.csummary.dmm
Print method for a 'dmm()' fitted model object.print.dmm
Print method for object of class 'gresponse.dmm'.print.gresponse.dmm
Print method for object of class 'gsummary.dmm'.print.gsummary.dmm
Print method for an object of class 'summary.dmm'.print.summary.dmm
Quercus example datasetquercus.df
Demonstration sheep datasetsheep.df
Make summary tables of (co)variance component estimates and fixed effect estimates for a dmm object.summary.dmm
Summary method for object of class 'gresponse.dmm'.summary.gresponse.dmm
Dfreml example datasettstmo1.df
Convert a vector from factor to numericunfactor
Convert 'warcolak' data file to format required for a dataframe for 'dmm()' or 'mdf()'.warcolak.convert