Parametric linkage analysis in R


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Documentation for package ‘paramlink’ version 0.6-1

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addMarker Marker genotypes for linkdat objects
addOffspring Modify the pedigree of 'linkdat' objects
addParents Modify the pedigree of 'linkdat' objects
all.equal.linkdat linkdat utilities
as.data.frame.linkdat linkdat objects
breakLoops linkdat utilities
cousinPed Create simple pedigrees
createPedigree Create simple pedigrees
descendants linkdat utilities
dominant Example pedigree for linkage analysis: 23 individuals, 650 SNPs
halfCousinPed Create simple pedigrees
likelihood Pedigree likelihood
linkage.power Power of a linkage study
linkdat linkdat objects
linkdat.utils linkdat utilities
linkres S3 methods for class 'linkres'.
lod Two-point LOD score
marker Marker genotypes for linkdat objects
mendelianCheck Marker genotypes for linkdat objects
merlin MERLIN wrapper function
modifyMarker Marker genotypes for linkdat objects
modifyPedigree Modify the pedigree of 'linkdat' objects
nuclearPed Create simple pedigrees
offspring linkdat utilities
oneMarkerDistribution Genotype probability distribution
pedigreeLoops linkdat utilities
plot.linkdat Plot pedigrees with genotypes
plot.linkres S3 methods for class 'linkres'.
power.varyPar Power of a linkage study
print.linkdat linkdat objects
print.linkdat.model Set, change or display the model parameters for 'linkdat' objects
print.linkres S3 methods for class 'linkres'.
randomPed Random pedigree
relabel Modify the pedigree of 'linkdat' objects
removeIndividuals Modify the pedigree of 'linkdat' objects
removeMarkers Marker genotypes for linkdat objects
setAvailable Availability vector for 'linkdat' objects
setMap Marker genotypes for linkdat objects
setMarkers Marker genotypes for linkdat objects
setModel Set, change or display the model parameters for 'linkdat' objects
SNPsim Simulate SNP markers
spouses linkdat utilities
subset.linkdat linkdat objects
summary.linkdat linkdat objects
summary.linkres S3 methods for class 'linkres'.
swapAff Modify the pedigree of 'linkdat' objects
swapAvailable Availability vector for 'linkdat' objects
swapSex Modify the pedigree of 'linkdat' objects
tieLoops linkdat utilities
toyped Toy pedigree for linkage analysis
trim Modify the pedigree of 'linkdat' objects
twoloops A consanguineous pedigree
twoMarkerDistribution Genotype probability distribution
write.linkdat linkdat objects
Xped Example pedigree with X-linked disease pattern.