GeneticsPed: Pedigree and genetic relationship functions

Classes and methods for handling pedigree data. It also includes functions to calculate genetic relationship measures as relationship and inbreeding coefficients and other utilities. Note that package is not yet stable. Use it with care!

AuthorGregor Gorjanc and David A. Henderson <DNADavenator@GMail.Com>, with code contributions by Brian Kinghorn and Andrew Percy (see file COPYING)
Date of publicationNone
MaintainerDavid Henderson <DNADavenator@GMail.Com>
LicenseLGPL (>= 2.1) | file LICENSE
Version1.36.0
http://rgenetics.org

View on Bioconductor

Files in this package

GeneticsPed/DESCRIPTION
GeneticsPed/LICENSE
GeneticsPed/NAMESPACE
GeneticsPed/R
GeneticsPed/R/TDT.R GeneticsPed/R/buildPedigree.R GeneticsPed/R/check.pedigree.R GeneticsPed/R/extend.R GeneticsPed/R/family.R GeneticsPed/R/founder.R GeneticsPed/R/geneContribution.R GeneticsPed/R/generateData.R GeneticsPed/R/generatePedigree.R GeneticsPed/R/generation.R GeneticsPed/R/getSlot.R GeneticsPed/R/gpi.R GeneticsPed/R/inbreeding.R GeneticsPed/R/inverseAdditive.R GeneticsPed/R/model.matrix.R GeneticsPed/R/nIndividual.R GeneticsPed/R/pedigree.R GeneticsPed/R/prune.R GeneticsPed/R/relationshipAdditive.R GeneticsPed/R/removeIndividual.R GeneticsPed/R/sort.pedigree.R GeneticsPed/R/summary.pedigree.R GeneticsPed/R/writePedigree.R
GeneticsPed/build
GeneticsPed/build/vignette.rds
GeneticsPed/data
GeneticsPed/data/Falconer5.1.csv
GeneticsPed/data/Mrode2.1.csv
GeneticsPed/data/Mrode3.1.csv
GeneticsPed/include
GeneticsPed/include/ainverse.h
GeneticsPed/include/eibd.h
GeneticsPed/include/inbreed.h
GeneticsPed/include/math_utilities.h
GeneticsPed/include/meuwissen.h
GeneticsPed/include/pedSort.h
GeneticsPed/include/pedtemplate.h
GeneticsPed/include/sortped.h
GeneticsPed/inst
GeneticsPed/inst/NEWS
GeneticsPed/inst/TODO
GeneticsPed/inst/doc
GeneticsPed/inst/doc/geneticRelatedness.R
GeneticsPed/inst/doc/geneticRelatedness.Rnw
GeneticsPed/inst/doc/geneticRelatedness.pdf
GeneticsPed/inst/doc/pedigreeHandling.R
GeneticsPed/inst/doc/pedigreeHandling.Rnw
GeneticsPed/inst/doc/pedigreeHandling.pdf
GeneticsPed/inst/doc/quanGenAnimalModel.R
GeneticsPed/inst/doc/quanGenAnimalModel.Rnw
GeneticsPed/inst/doc/quanGenAnimalModel.pdf
GeneticsPed/inst/unitTests
GeneticsPed/inst/unitTests/Makefile
GeneticsPed/inst/unitTests/runit.extend.R
GeneticsPed/inst/unitTests/runit.genRelMatrix.R
GeneticsPed/inst/unitTests/runit.gpi.R
GeneticsPed/inst/unitTests/runit.pedigree.R
GeneticsPed/inst/unitTests/runit.prune.R
GeneticsPed/inst/unitTests/runit.unknown.R
GeneticsPed/man
GeneticsPed/man/TDT.Rd GeneticsPed/man/check.Rd GeneticsPed/man/datasets.Rd GeneticsPed/man/extend.Rd GeneticsPed/man/family.Rd GeneticsPed/man/founder.Rd GeneticsPed/man/geneContribution.Rd GeneticsPed/man/generatePedigree.Rd GeneticsPed/man/generation.Rd GeneticsPed/man/gpi.Rd GeneticsPed/man/gpiUtil.Rd GeneticsPed/man/inbreeding.Rd GeneticsPed/man/model.matrix.Rd GeneticsPed/man/nIndividual.Rd GeneticsPed/man/pedigree.Rd GeneticsPed/man/prune.Rd GeneticsPed/man/relationshipAdditive.Rd GeneticsPed/man/removeIndividual.Rd GeneticsPed/man/sort.pedigree.Rd GeneticsPed/man/summary.pedigree.Rd GeneticsPed/man/undocumented.Rd
GeneticsPed/src
GeneticsPed/src/ainverse.cc
GeneticsPed/src/eibd.cc
GeneticsPed/src/ggmatmult.f
GeneticsPed/src/gpi.f
GeneticsPed/src/inbreed.cc
GeneticsPed/src/inverseAdditive.cc
GeneticsPed/src/meuwissen.cc
GeneticsPed/src/pedSort.cc
GeneticsPed/src/pedtemplate.cc
GeneticsPed/src/register.cc
GeneticsPed/src/sargolzaei.c
GeneticsPed/src/sortped.cc
GeneticsPed/tests
GeneticsPed/tests/doRUnit.R
GeneticsPed/vignettes
GeneticsPed/vignettes/geneticRelatedness.Rnw
GeneticsPed/vignettes/library.bib
GeneticsPed/vignettes/pedigreeHandling.Rnw
GeneticsPed/vignettes/quanGenAnimalModel.Rnw

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