Man pages for alghul96/AdmSim
Simulation for Genetic Admixture
| AddAllele | AddAllele |
| AdmSim-package | Simulation for Genetic Admixture |
| Allele | An allele is a piece of information on a chromosome. |
| Allele-class | Class '"Allele"' |
| as.char.chromosome | Return a string of a chromosome in a readable format |
| as.char.chromosome-methods | ~~ Methods for Function 'as.char.chromosome' ~~ |
| as.char.geneSeq | Return a string containing a description of a GeneSequence in... |
| as.char.geneSeq-methods | ~~ Methods for Function 'as.char.geneSeq' ~~ |
| as.vector.Chromosome | Return the chromosome in a vectorized format, i.e the same... |
| as.vector.Chromosome-methods | ~~ Methods for Function 'as.vector.Chromosome' ~~ |
| checkGenotype | Return true whether a chromosome is of a given type at a... |
| checkGenotype-methods | ~~ Methods for Function 'checkGenotype' ~~ |
| Chromosome | A chromosome is composed of 1 or more gene sequences and can... |
| Chromosome-class | Class '"Chromosome"' |
| compactChromosome | Reduces the dimention of a chromosome. |
| compactChromosome-methods | ~~ Methods for Function 'compactChromosome' ~~ |
| ComputeViability | Compute the viabilities of a specific Allele with selection... |
| ComputeViability-methods | ~~ Methods for Function 'ComputeViability' ~~ |
| CreatePopulation | This function intialize a new population without any... |
| DoCrossover | Performs crossing over for an Individual and return a... |
| DoCrossover-methods | ~~ Methods for Function 'DoCrossover' ~~ |
| GeneFreq | A vector of a given resolution contating the frequency of a... |
| GeneFreq-class | Class '"GeneFreq"' |
| geneSeq | A gene sequence is needed for coding conseguent populations... |
| geneSeq-class | Class '"geneSeq"' |
| geneSite | An Allele, with a selection coefficient s. |
| geneSite-class | Class '"geneSite"' |
| GenotypeProportions | Find the proportion of individuals with genotype AA, Aa, or... |
| GetAlleleFreq | Return the frequency of an allele in a population. |
| GetAlleleFreq-methods | ~~ Methods for Function 'GetAlleleFreq' ~~ |
| GetGeneFreq | Get the frequency of a population haplotype inside a... |
| GetGeneFreq-methods | ~~ Methods for Function 'GetGeneFreq' ~~ |
| Individual | An individual, member of a population, with two chromosomes. |
| Individual-class | Class '"Individual"' |
| listOrNULL-class | Class '"listOrNULL"' |
| MateIndividuals | Function for mating two individuals in a population. |
| MateIndividuals-methods | ~~ Methods for Function 'MateIndividuals' ~~ |
| MatePopulations.par | Make a new generation out of 1 or more populations. |
| plot.GeneFreq | Plot the frequency of population genes inside a population. |
| plot.GeneFreq-methods | ~~ Methods for Function 'plot.GeneFreq' ~~ |
| plot.Individual | Plot an individual genome. |
| plot.Individual-methods | ~~ Methods for Function 'plot.Individual' ~~ |
| plot.Population | Plot the populations frequencies inside a population. A... |
| plot.Population-methods | ~~ Methods for Function 'plot.Population' ~~ |
| Population | A collection of individuals |
| Population-class | Class '"Population"' |
| ProgressBar | A simple percentage bar to keep track of a simulation status. |
| SelectIndividuals | Perform selection on individuals based on 1 or more alleles... |
| SelectIndividuals-methods | ~~ Methods for Function 'SelectIndividuals' ~~ |
| show-methods | ~~ Methods for Function 'show' ~~ |
| splitChromosome | Split a chromosome in one or more smaller sequences. |
| splitChromosomeAlleles | Split a chromosome, returning the alleles in each split. |
| splitChromosomeAlleles-methods | ~~ Methods for Function 'splitChromosomeAlleles' ~~ |
| splitChromosome-methods | ~~ Methods for Function 'splitChromosome' ~~ |
