API for AlphaSimR
Breeding Program Simulations

Global functions
.newPop	Man page Source code
AlphaSimR	Man page
AlphaSimR-package	Man page
HybridPop-class	Man page
LociMap-class	Man page
MaCS	Source code
MapPop-class	Man page
MultiPop-class	Man page
NamedMapPop-class	Man page
Pop-class	Man page
RRBLUP	Man page Source code
RRBLUP2	Man page Source code
RRBLUPMemUse	Man page Source code
RRBLUP_D	Man page Source code
RRBLUP_D2	Man page Source code
RRBLUP_GCA	Man page Source code
RRBLUP_GCA2	Man page Source code
RRBLUP_SCA	Man page Source code
RRBLUP_SCA2	Man page Source code
RRsol-class	Man page
RawPop-class	Man page
SimParam	Man page
TraitA-class	Man page
TraitA2-class	Man page
TraitA2D-class	Man page
TraitAD-class	Man page
TraitADE-class	Man page
TraitADEG-class	Man page
TraitADG-class	Man page
TraitAE-class	Man page
TraitAEG-class	Man page
TraitAG-class	Man page
[,HybridPop-method	Man page
[,MapPop-method	Man page
[,MultiPop-method	Man page
[,NamedMapPop-method	Man page
[,Pop-method	Man page
[,RawPop-method	Man page
[[,MultiPop-method	Man page
aa	Man page Source code
addError	Source code
addSegSite	Man page Source code
argAltAD	Source code
attrition	Man page Source code
bv	Man page Source code
c,HybridPop-method	Man page
c,MapPop-method	Man page
c,MultiPop-method	Man page
c,NamedMapPop-method	Man page
c,Pop-method	Man page
c,RawPop-method	Man page
cChr	Man page Source code
calcChrFreq	Source code
calcCoef	Source code
calcGCA	Man page Source code
calcGenParam	Source code
calcGenoFreq	Source code
calcPheno	Source code
callFastRRBLUP	Source code
callRRBLUP	Source code
callRRBLUP2	Source code
callRRBLUP_D	Source code
callRRBLUP_D2	Source code
callRRBLUP_GCA	Source code
callRRBLUP_GCA2	Source code
callRRBLUP_MV	Source code
callRRBLUP_SCA	Source code
callRRBLUP_SCA2	Source code
checkSexes	Source code
convToImat	Source code
convertTraitsToNames	Source code
createDH2	Source code
createIbdMat	Source code
createReducedGenome	Source code
cross	Source code
dd	Man page Source code
doubleGenome	Man page Source code
ebv	Man page Source code
editGenome	Man page
editGenomeTopQtl	Man page Source code
fastRRBLUP	Man page Source code
finAltAD	Source code
genParam	Man page Source code
genicVarA	Man page Source code
genicVarAA	Man page Source code
genicVarD	Man page Source code
genicVarG	Man page Source code
getCandidates	Source code
getFam	Source code
getFounderIbd	Source code
getGenMap	Man page Source code
getGeno	Source code
getGv	Source code
getHaplo	Source code
getHybridGv	Source code
getLociNames	Source code
getMaternalGeno	Source code
getNonFounderIbd	Source code
getNumThreads	Man page Source code
getOneHaplo	Source code
getPaternalGeno	Source code
getPed	Man page Source code
getQtlMap	Man page Source code
getResponse	Source code
getSnpMap	Man page Source code
gv	Man page Source code
hybridCross	Man page Source code
importGenMap	Man page Source code
importHaplo	Man page Source code
importInbredGeno	Man page Source code
isFemale	Man page Source code
isHybridPop	Man page Source code
isLociMap	Source code
isMale	Man page Source code
isMapPop	Man page Source code
isMultiPop	Man page Source code
isNamedMapPop	Man page Source code
isPop	Man page Source code
isRRsol	Source code
isRawPop	Man page Source code
isSimParam	Source code
isTraitA	Source code
isTraitA2	Source code
isTraitA2D	Source code
isTraitAD	Source code
isTraitADE	Source code
isTraitADEG	Source code
isTraitADG	Source code
isTraitAE	Source code
isTraitAEG	Source code
isTraitAG	Source code
length,MultiPop-method	Man page
length,Pop-method	Man page
makeCross	Man page Source code
makeCross2	Man page Source code
makeDH	Man page Source code
mapLoci	Man page Source code
meanEBV	Man page Source code
meanG	Man page Source code
meanP	Man page Source code
mergeGeno	Source code
mergeGenome	Man page Source code
mergeMultGeno	Source code
mergeMultIntMat	Source code
mergePops	Man page Source code
mutate	Man page Source code
nInd	Man page Source code
newEmptyPop	Man page Source code
newMapPop	Man page Source code
newMultiPop	Man page Source code
newPop	Man page Source code
objAltAD	Source code
packHaplo	Source code
pedigreeCross	Man page Source code
pheno	Man page Source code
popVar	Man page Source code
pullIbdHaplo	Man page Source code
pullMarkerGeno	Man page Source code
pullMarkerHaplo	Man page Source code
pullQtlGeno	Man page Source code
pullQtlHaplo	Man page Source code
pullSegSiteGeno	Man page Source code
pullSegSiteHaplo	Man page Source code
pullSnpGeno	Man page Source code
pullSnpHaplo	Man page Source code
quickHaplo	Man page Source code
randCross	Man page Source code
randCross2	Man page Source code
reduceGenome	Man page Source code
resetPop	Man page Source code
rnormWithSeed	Source code
runMacs	Man page Source code
runMacs2	Man page Source code
sampAddEff	Source code
sampAllComb	Source code
sampDomEff	Source code
sampEpiEff	Source code
sampHalfDialComb	Source code
sampleHaplo	Man page Source code
sampleInt	Source code
selIndex	Man page Source code
selInt	Man page Source code
selectCross	Man page Source code
selectFam	Man page Source code
selectInd	Man page Source code
selectLoci	Source code
selectOP	Man page Source code
selectWithinFam	Man page Source code
self	Man page Source code
setEBV	Man page Source code
setHaplo	Source code
setMarkerHaplo	Man page Source code
setPheno	Man page Source code
setPhenoGCA	Man page Source code
setPhenoProgTest	Man page Source code
show,Pop-method	Man page
show,RawPop-method	Man page
smithHazel	Man page Source code
solveMKM	Man page Source code
solveMVM	Man page Source code
solveRRBLUP	Man page Source code
solveRRBLUPMK	Man page Source code
solveRRBLUPMV	Man page Source code
solveRRBLUP_EM	Man page Source code
solveRRBLUP_EM2	Man page Source code
solveRRBLUP_EM3	Man page Source code
solveUVM	Man page Source code
sortPed	Source code
transMat	Man page Source code
usefulness	Man page Source code
varA	Man page Source code
varAA	Man page Source code
varD	Man page Source code
varEBV	Man page Source code
varG	Man page Source code
varP	Man page Source code
writeASGenotypes	Source code
writeASHaplotypes	Source code
writeGeno	Source code
writeOneHaplo	Source code
writePlink	Man page Source code
writeRecords	Man page Source code