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| optiSel-package | Optimum Contribution Selection and Population Genetics |
| Cattle | Information on 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 |
| help.opticont | Displays Available Objective Functions and Constraints for Function 'opticont'. |
| help.opticont4mb | Displays Available Objective Functions and Constraints for Function 'opticont4mb'. |
| Kin | A list of class kinMatrices containing kinship matrices |
| kinlist | Combines Kinship Matrices into a List |
| kinwac | Calculates *Kin*ships *W*ith *A*ge *C*ohorts |
| map | Marker Map for Cattle |
| noffspring | Calculates Optimum Numbers of Offspring |
| opticomp | Calculates the Optimum Breed Composition |
| opticont | Calculates Optimum Contributions of Selection Candidates |
| opticont4mb | Calculates Optimum Contributions of Selection Candidates using Multi-Breed Genotype Data |
| 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 Particular Breeds |
| prePed | *Pre*pares a *Ped*igree |
| read.indiv | Reads Individual IDs from a Genotype File |
| 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 | Calculates 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.kinwac | Calculates Genetic Parameters for Age Cohorts |
| summary.opticont | Summary Statistics and Check of Validity for Optimum Contributions. |
| summary.Pedig | Calculates Summary Statistics for Pedigrees. |