| optiSel-package | Optimum Contribution Selection and Population Genetics | 
| 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 List | 
| genecont | Calculates Genetic Contributions using Pedigrees. | 
| haplofreq | Evaluates the Occurrence of Haplotype Segments in Particular Breeds | 
| 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 | Optimum Contribution Selection and Population Genetics | 
| pedBreedComp | Calculates the Pedigree Based Breed Composition of Individuals | 
| 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 Native Segment | 
| segIBDatN | Segment-Based Kinship at Native Alleles. | 
| segInbreeding | Calculates Segment Based Inbreeding | 
| segN | Calculates Probabilities of Alleles to belong to Native Segments | 
| 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. |