| agecont | Contributions of age cohorts to the population |
| candes | Candidate Description |
| Cattle | Phenotypes of Genotyped Cattle |
| Chr1.phased | Phased Cattle Genotypes from Chromosome 1 |
| Chr2.phased | Phased Cattle Genotypes from Chromosome 2 |
| completeness | Calculates Pedigree Completeness |
| conttac | Calculates *Cont*ributions *T*o *A*ge *C*ohorts |
| ExamplePed | Pedigree of Hinterwald Cattle |
| freqlist | Combines Objects Computed with Function haplofreq() into a... |
| genecont | Calculates Genetic Contributions using Pedigrees. |
| haplofreq | Evaluates the Occurrence of Haplotype Segments in Particular... |
| makeA | Calculates the Pedigree-based Additive Relationship Matrix |
| map | Marker Map for Cattle |
| matings | Mate Allocation |
| noffspring | Calculates Optimum Numbers of Offspring |
| opticomp | Calculates the Optimum Breed Composition |
| opticont | Optimum Contributions of Selection Candidates |
| optiSel-package | Optimum Contribution Selection and Population Genetics |
| pedBreedComp | Calculates the Pedigree Based Breed Composition of... |
| pedIBD | Calculates the Pedigree-based Kinship Matrix |
| pedIBDatN | Calculates the Pedigree Based Kinship at Native Alleles |
| pedIBDorM | Calculates Kinships taking Allele Origin into Account |
| PedigWithErrors | Pedigree of Hinterwald cattle |
| pedInbreeding | Calculates Pedigree Based Inbreeding |
| pedplot | Plots a Pedigree |
| Phen | Simulated Phenotypes of Hinterwald Cattle |
| plot.HaploFreq | Plots Frequencies of Haplotype Segments in Specified Breeds |
| prePed | *Pre*pares a *Ped*igree |
| read.indiv | Reads Individual IDs from a Genotype File |
| sampleIndiv | Sample Individuals from Pedigree |
| segBreedComp | Calculates the Segment-Based Breed Composition of Individuals |
| segIBD | Calculates the Segment Based Kinship Matrix |
| segIBDandN | Calculates Probabilities that Alleles belong to a Shared... |
| segIBDatN | Segment-Based Kinship at Native Alleles. |
| segInbreeding | Calculates Segment Based Inbreeding |
| segN | Calculates Probabilities of Alleles to belong to Native... |
| sim2dis | Converts a Similarity Matrix into a Dissimilarity Matrix |
| subPed | Creates a Subset of a Large Pedigree |
| summary.candes | Population Genetic Parameters at Different Times |
| summary.Pedig | Calculates Summary Statistics for Pedigrees. |
