Global functions | |
---|---|
+,geneticData,assignFounderPattern-method | Man page |
+,geneticData,assignFounderPatternPrototype-method | Man page |
+,geneticData,biparentalDominant-method | Man page |
+,geneticData,fixedNumberOfFounderAlleles-method | Man page |
+,geneticData,multiparentSNP-method | Man page |
+,geneticData,multiparentSNPPrototype-method | Man page |
+,geneticData,normalPhenotype-method | Man page |
+,mpcross,assignFounderPattern-method | Man page |
+,mpcross,assignFounderPatternPrototype-method | Man page |
+,mpcross,biparentalDominant-method | Man page |
+,mpcross,fixedNumberOfFounderAlleles-method | Man page |
+,mpcross,mpcross-method | Man page |
+,mpcross,multiparentSNP-method | Man page |
+,mpcross,multiparentSNPPrototype-method | Man page |
+,mpcross,normalPhenotype-method | Man page |
+,mpcross,removeHets-method | Man page |
+,mpcrossMapped,assignFounderPattern-method | Man page |
+,mpcrossMapped,assignFounderPatternPrototype-method | Man page |
+,mpcrossMapped,mpcrossMapped-method | Man page |
+,mpcrossRF,mpcross-method | Man page |
+,mpcrossRF,mpcrossRF-method | Man page |
.geneticData | Man page |
.mpcross | Man page |
.mpcrossMapped | Man page |
.mpcrossRF | Man page |
.pedigreeGraph | Man page |
.probabilities | Man page |
.rcpp_collect_warnings | Source code |
.rcpp_error_recorder | Source code |
.rcpp_warning_recorder | Source code |
[,rawSymmetricMatrix,index,index,logical-method | Man page |
[,rawSymmetricMatrix,index,index,missing-method | Man page |
[,rawSymmetricMatrix,matrix,missing,missing-method | Man page |
[,rawSymmetricMatrix,missing,missing,missing-method | Man page |
addExtraMarkerFromRawCall | Man page Source code |
addExtraMarkers | Man page Source code |
as.mpInterval | Man page Source code |
as.mpInterval.mpInterval | Source code |
as.mpInterval.mpMarker | Source code |
assignFounderPattern | Man page Source code |
assignFounderPatternPrototype | Source code |
assignFounderPatternPrototypeInternal | Source code |
backcrossPedigree | Man page Source code |
biparentalDominant | Man page Source code |
callFromMap | Man page Source code |
callFromMapInternal | Source code |
changeMarkerPosition | Man page Source code |
checkCompatibleGeneticData | Source code |
checkDetailedPedigree | Source code |
checkGeneticData | Source code |
checkGeneticDataList | Source code |
checkHets | Source code |
checkImputedData | Source code |
checkLG | Source code |
checkMap | Source code |
checkMpcross | Source code |
checkMpcrossLG | Source code |
checkMpcrossMapped | Source code |
checkMpcrossRF | Source code |
checkPedigree | Source code |
checkPedigreeGraph | Source code |
checkProbabilities | Source code |
checkRF | Source code |
checkRawSymmetricMatrix | Source code |
clusterOrderCross | Man page Source code |
combineGenotypes | Source code |
combineKeepRF | Man page Source code |
compressedProbabilities | Source code |
computeAllEpistaticChiSquared | Man page Source code |
computeGenotypeProbabilities | Man page Source code |
computeGenotypeProbabilitiesInternal | Source code |
condition | Source code |
createSNPTemplate | Source code |
designMat | Source code |
detailedPedigree | Man page Source code |
detailedPedigree-class | Man page |
eightParentPedigreeImproperFunnels | Man page Source code |
eightParentPedigreeImproperFunnelsPrototype | Source code |
eightParentPedigreeRandomFunnels | Man page Source code |
eightParentPedigreeRandomFunnelsPrototype | Source code |
eightParentPedigreeSingleFunnel | Man page Source code |
eightParentPedigreeSingleFunnelPrototype | Source code |
eightParentSubsetMap | Man page |
estimateMap | Man page Source code |
estimateMapFromImputation | Man page Source code |
estimateMapInternal | Source code |
estimateRF | Man page Source code |
estimateRFInternal | Source code |
estimateRFSingleDesign | Man page Source code |
estimateRFSingleDesignInternal | Source code |
existingLocalisationStatistics | Man page |
expand | Man page Source code |
expandedProbabilitiesFinite | Source code |
expandedProbabilitiesInfinite | Source code |
exportMapToPretzl | Man page Source code |
extraImputationPoints | Man page Source code |
f2Pedigree | Man page Source code |
finalNames | Man page |
finalNames,geneticData-method | Man page |
finalNames,mpcross-method | Man page |
finals | Man page |
finals,geneticData-method | Man page |
finals,mpcross-method | Man page |
fixedNumberOfFounderAlleles | Man page Source code |
flatImputationMapNames | Man page |
flatImputationMapNames,geneticData-method | Man page |
flatImputationMapNames,imputed-method | Man page |
flatImputationMapNames,mpcrossMapped-method | Man page |
formGroups | Man page Source code |
founderNames | Man page |
founderNames,geneticData-method | Man page |
founderNames,mpcross-method | Man page |
founders | Man page |
founders,geneticData-method | Man page |
founders,mpcross-method | Man page |
fourParentPedigreeRandomFunnels | Man page Source code |
fourParentPedigreeRandomFunnelsPrototype | Source code |
fourParentPedigreeSingleFunnel | Man page Source code |
fourParentPedigreeSingleFunnelPrototype | Source code |
fromMpMap | Man page Source code |
fullHetData | Source code |
generateGridPositions | Man page Source code |
generateIntervalMidPoints | Man page Source code |
geneticData-class | Man page |
getAllFunnels | Man page Source code |
getAllFunnelsIncAIC | Man page Source code |
getChromosomes | Man page Source code |
getIntercrossingAndSelfingGenerations | Man page Source code |
getPositions | Man page Source code |
haldane | Man page |
haldaneToRf | Man page Source code |
hetData | Man page |
hetData,geneticData-method | Man page |
hetData,mpcross-method | Man page |
hetsForSNPMarkers | Man page Source code |
imputationData | Man page |
imputationData,geneticData-method | Man page |
imputationData,imputed-method | Man page |
imputationData,mpcrossMapped-method | Man page |
imputationKey | Man page |
imputationKey,geneticData-method | Man page |
imputationKey,imputed-method | Man page |
imputationKey,mpcrossMapped-method | Man page |
imputationMap | Man page |
imputationMap,geneticData-method | Man page |
imputationMap,imputed-method | Man page |
imputationMap,mpcrossMapped-method | Man page |
impute | Man page Source code |
imputeFounders | Man page Source code |
infiniteSelfing | Man page Source code |
inheritsNewMpcrossArgument | Source code |
initialize,canSkipValidity-method | Man page |
initialize,geneticDataList-method | Man page |
isDetailedPedigreeArgument | Source code |
isHetDataArgument | Source code |
isIntegerMatrixArgument | Source code |
isMapArgument | Source code |
isMpMapPedigreeArgument | Source code |
isNewMpcrossLGArgument | Source code |
isNewMpcrossMappedArgument | Source code |
isNewMpcrossRFArgument | Source code |
isNumericMatrixArgument | Source code |
isNumericVectorListArgument | Source code |
isOldMpMapMpcrossArgument | Source code |
isPedigreeArgument | Source code |
jitterMap | Man page Source code |
kosambi | Man page |
kosambiToRf | Man page Source code |
lineNames | Man page |
lineNames,geneticData-method | Man page |
lineNames,mpcross-method | Man page |
lineNames,pedigree-method | Man page |
lineNames<- | Man page |
lineNames<-,detailedPedigree-method | Man page |
lineNames<-,pedigree-method | Man page |
linesByNames | Man page Source code |
listCodingErrors | Man page Source code |
listCodingErrorsInfiniteSelfing | Man page Source code |
mapFunctions | Man page |
markers | Man page |
markers,geneticData-method | Man page |
markers,hetData-method | Man page |
markers,lg-method | Man page |
markers,mpcross-method | Man page |
markers,rf-method | Man page |
mpcross | Man page Source code |
mpcross-class | Man page |
mpcrossMapped | Man page Source code |
mpcrossMapped-class | Man page |
mpcrossRF-class | Man page |
multiparentSNP | Man page Source code |
multiparentSNPKeepHets | Source code |
multiparentSNPPrototype | Source code |
multiparentSNPPrototypeKeepHets | Source code |
multiparentSNPPrototypeRemoveHets | Source code |
multiparentSNPRemoveHets | Source code |
nFounders | Man page |
nFounders,detailedPedigree-method | Man page |
nFounders,geneticData-method | Man page |
nFounders,mpcross-method | Man page |
nFounders,pedigree-method | Man page |
nLines | Man page |
nLines,geneticData-method | Man page |
nLines,mpcross-method | Man page |
nMarkers | Man page |
nMarkers,geneticData-method | Man page |
nMarkers,mpcross-method | Man page |
nonNegativeIntegerArgument | Source code |
normalPhenotype | Man page Source code |
omp_get_num_threads | Man page Source code |
omp_set_num_threads | Man page Source code |
orderCross | Man page Source code |
pedigree | Man page Source code |
pedigree-class | Man page |
pedigreeGraph-class | Man page |
pedigreeToGraph | Man page Source code |
plot,addExtraMarkersStatistics,ANY-method | Man page |
plot,geneticData,ANY-method | Man page |
plot,imputed,ANY-method | Man page |
plot,mpcross,ANY-method | Man page |
plot,pedigreeGraph,ANY-method | Man page |
plot,probabilities,ANY-method | Man page |
plotMosaic | Man page Source code |
plotProbabilities | Man page Source code |
positiveIntegerArgument | Source code |
print.mpcross | Source code |
print.mpcrossLG | Source code |
print.mpcrossRF | Source code |
probabilities-class | Man page |
probabilityData | Man page |
probabilityData,geneticData-method | Man page |
probabilityData,mpcrossMapped-method | Man page |
purdyToPedigree | Source code |
redact | Man page |
redact,geneticData-method | Man page |
redact,mpcross-method | Man page |
redact,mpcrossLG-method | Man page |
redact,mpcrossMapped-method | Man page |
redact,mpcrossRF-method | Man page |
removeHets | Man page Source code |
reorderPedigree | Source code |
reverseChromosomes | Man page Source code |
rfToHaldane | Man page Source code |
rfToKosambi | Man page Source code |
rilPedigree | Man page Source code |
selfing | Man page |
selfing,pedigree-method | Man page |
selfing<- | Man page |
selfing<-,detailedPedigree-method | Man page |
selfing<-,pedigree-method | Man page |
simulateMPCross | Man page Source code |
simulatedFourParentData | Man page |
simulatedFourParentMap | Man page |
singleLocusProbabilities | Source code |
sixteenParentPedigreeRandomFunnels | Man page Source code |
sixteenParentPedigreeRandomFunnelsPrototype | Source code |
splitVector | Source code Source code |
stripPedigree | Man page Source code |
subset,geneticData-method | Man page |
subset,hetData-method | Man page |
subset,imputed-method | Man page |
subset,lg-method | Man page |
subset,mpcross-method | Man page |
subset,mpcrossLG-method | Man page |
subset,mpcrossMapped-method | Man page |
subset,mpcrossRF-method | Man page |
subset,probabilities-method | Man page |
subset,rawSymmetricMatrix-method | Man page |
subset,rf-method | Man page |
testDistortion | Man page Source code |
toMpMap | Man page Source code |
transposeProbabilities | Man page Source code |
twoParentPedigree | Man page Source code |
wsnp_Ku_rep_c103074_89904851 | Man page |
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