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| allGenotypes | Genotype matrix |
| checkMerlin | Pedigree likelihood computed by MERLIN |
| genoCombinations | Genotype combinations |
| HWprob | Hardy-Weinberg probabilities |
| likelihood | Pedigree likelihood |
| likelihood.list | Pedigree likelihood |
| likelihood.ped | Pedigree likelihood |
| likelihood2 | Pedigree likelihood |
| likelihood2.list | Pedigree likelihood |
| likelihood2.ped | Pedigree likelihood |
| likelihoodMerlin | Pedigree likelihood computed by MERLIN |
| lumpAlleles | Allele lumping |
| merlin | Pedigree likelihood computed by MERLIN |
| oneMarkerDistribution | Genotype distribution for a single marker |
| pedprobr | pedprobr: Probability Computations on Pedigrees |
| setMutationModel | Set a mutation model |
| twoMarkerDistribution | Genotype distribution for two linked markers |