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| addMarker | Marker functions |
| 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 |
| as.matrix.linkdat | linkdat to matrix conversions |
| breakLoops | linkdat utilities |
| cousinPed | Create simple pedigrees |
| createPedigree | Create simple pedigrees |
| descendants | linkdat utilities |
| dominant | Example pedigree for linkage analysis: 23 individuals, 650 SNPs |
| exclusionPower | Power of exclusion |
| halfCousinPed | Create simple pedigrees |
| likelihood | Pedigree likelihood |
| likelihood.linkdat | Pedigree likelihood |
| likelihood.list | Pedigree likelihood |
| likelihood.singleton | Pedigree likelihood |
| likelihoodSNP | 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 functions |
| markerSim | Marker simulation |
| mendelianCheck | Marker functions |
| merlin | MERLIN wrapper function |
| modifyMarker | Marker functions |
| modifyMarkerMatrix | Marker functions |
| 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'. |
| plot.singleton | Plot pedigrees with genotypes |
| 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 functions |
| restore_linkdat | linkdat to matrix conversions |
| setAvailable | Functions for modifying availability vectors |
| setMap | Marker functions |
| setMarkers | Marker functions |
| setModel | Set, change or display the model parameters for 'linkdat' objects |
| simpleSim | Marker simulation |
| singleton | 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 | Functions for modifying availability vectors |
| swapGenotypes | Marker functions |
| 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. |