Files in AlphaSimR
Breeding Program Simulations

MD5
NEWS.md README.md
NAMESPACE
DESCRIPTION
LICENSE
R/RcppExports.R R/mergePops.R R/importData.R R/pullGeno.R R/Class-HybridPop.R R/hybrids.R R/writePlink.R R/AlphaSimR.R R/polyploids.R R/phenotypes.R R/founderPop.R R/misc.R R/Class-Pop.R R/popSummary.R R/Class-LociMap.R R/writeRecords.R R/Class-RRsol.R R/GS.R R/selection.R R/crossing.R R/Class-SimParam.R
src/simulator.cpp
src/Makevars.win
src/Makevars
src/simulator.h
src/RcppExports.cpp
src/alphasimr.h
src/optimize.cpp
src/getGeno.h
src/MME.cpp
src/alphaSuite.cpp
src/meiosis.cpp
src/packHaplo.cpp
src/misc.cpp
src/misc.h
src/altAddTraitAD.cpp
src/calcGenParam.cpp
src/getGeno.cpp
src/datastructures.cpp
src/algorithm.cpp
src/ibd.cpp
src/getHybridGv.cpp
src/constants.h
src/getGv.cpp
src/optimize.h
inst/REFERENCES.bib
inst/CITATION
inst/doc/traits.Rmd inst/doc/traits.pdf inst/doc/intro.Rmd
inst/doc/intro.html
inst/doc/intro.R
build/vignette.rds
build/partial.rdb
tests/testthat.R tests/testthat/test-selection.R tests/testthat/test-editGenome.R tests/testthat/test-addTrait.R tests/testthat/test-importData.R tests/testthat/test-hybrids.R tests/testthat/test-statistics.R tests/testthat/test-misc.R tests/testthat/test-crossing.R vignettes/traits.Rmd vignettes/intro.Rmd
vignettes/AlphaSimR.bib
vignettes/articles/GenomicSelection.Rmd vignettes/articles/QuantGen.Rmd vignettes/articles/Traits.Rmd vignettes/articles/DataImport.Rmd vignettes/articles/Misc.Rmd vignettes/articles/Meiosis.Rmd vignettes/articles/AlphaSimR.Rmd vignettes/articles/Genome.Rmd man/usefulness.Rd man/pullSegSiteHaplo.Rd man/solveRRBLUP_EM3.Rd man/NamedMapPop-class.Rd man/getQtlMap.Rd man/solveMVM.Rd man/Pop-class.Rd man/mergeGenome.Rd man/randCross.Rd man/getGenMap.Rd man/newPop.Rd man/varD.Rd man/makeDH.Rd man/makeCross2.Rd man/pullSnpHaplo.Rd man/meanEBV.Rd man/addSegSite.Rd man/varP.Rd man/self.Rd man/pheno.Rd man/solveRRBLUPMV.Rd man/ebv.Rd man/transMat.Rd man/selIndex.Rd man/genicVarA.Rd man/gv.Rd man/makeCross.Rd man/pullSegSiteGeno.Rd man/bv.Rd man/newMultiPop.Rd man/editGenome.Rd man/runMacs.Rd man/genicVarAA.Rd man/TraitADG-class.Rd man/RRBLUP_D2.Rd man/solveRRBLUPMK.Rd man/selInt.Rd man/AlphaSimR-package.Rd man/setMarkerHaplo.Rd man/importHaplo.Rd man/hybridCross.Rd man/pullQtlGeno.Rd man/setPhenoGCA.Rd man/getNumThreads.Rd man/MapPop-class.Rd man/TraitA-class.Rd man/getSnpMap.Rd man/calcGCA.Rd man/RRBLUP2.Rd man/mergePops.Rd man/solveRRBLUP_EM2.Rd man/RRBLUP_GCA2.Rd man/newEmptyPop.Rd man/TraitAG-class.Rd man/dot-newPop.Rd man/TraitA2D-class.Rd man/selectWithinFam.Rd man/setPhenoProgTest.Rd man/TraitA2-class.Rd man/isPop.Rd man/pullMarkerGeno.Rd man/RawPop-class.Rd man/RRsol-class.Rd man/pullMarkerHaplo.Rd man/writeRecords.Rd man/LociMap-class.Rd man/popVar.Rd man/genicVarD.Rd man/TraitAEG-class.Rd man/editGenomeTopQtl.Rd man/RRBLUP_GCA.Rd man/isFemale.Rd man/HybridPop-class.Rd man/pullSnpGeno.Rd man/varG.Rd man/genParam.Rd man/pullQtlHaplo.Rd man/importGenMap.Rd man/RRBLUPMemUse.Rd man/varA.Rd man/quickHaplo.Rd man/RRBLUP_SCA2.Rd man/sampleHaplo.Rd man/mutate.Rd man/solveRRBLUP.Rd man/setPheno.Rd man/MultiPop-class.Rd man/meanG.Rd man/selectFam.Rd man/writePlink.Rd man/TraitADE-class.Rd man/pullIbdHaplo.Rd man/nInd.Rd man/newMapPop.Rd man/doubleGenome.Rd man/smithHazel.Rd man/solveUVM.Rd man/selectCross.Rd man/selectInd.Rd man/reduceGenome.Rd man/pedigreeCross.Rd man/dd.Rd man/cChr.Rd man/RRBLUP_D.Rd man/setEBV.Rd man/randCross2.Rd man/solveMKM.Rd man/getPed.Rd man/aa.Rd man/runMacs2.Rd man/varAA.Rd man/selectOP.Rd man/meanP.Rd man/TraitAD-class.Rd man/importInbredGeno.Rd man/attrition.Rd man/TraitAE-class.Rd man/RRBLUP.Rd man/RRBLUP_SCA.Rd man/resetPop.Rd man/SimParam.Rd man/varEBV.Rd man/TraitADEG-class.Rd man/genicVarG.Rd man/fastRRBLUP.Rd man/solveRRBLUP_EM.Rd
AlphaSimR documentation built on Sept. 11, 2024, 6:33 p.m.