admix

The data set provides simulated allele calls for 50 individuals from 3 populations. We consider a simple admixture scenario where two ancestral populations, popA (sample size $n_A = 15$) and popB (sample size $n_B = 15$), merged 160 generations ago to form the admixed population, popAB (sample size $n_{AB} = 20$). The ancestral populations contributed to the admixed population with probability 0.5.

datasets

Implements wavelet-based approaches for describing population admixture. Principal Components Analysis (PCA) is used to define the population structure and produce a localized admixture signal for each individual. Wavelet summaries of the PCA output describe variation present in the data and can be related to population-level demographic processes. For more details, see accompanying paper.

Murray Cox

adwave

Wavelet Analysis of Genomic Data from Admixed Populations

admix function

List with the following entries


<ul><li><code>data</code>: 3,000 x 50 data matrix with 3,000 genotype calls (columns) versus 50 individuals (rows). Raw entries take the value 0 if heterozygous, and -1 or 1 if homozygous. SNPs are ordered by their physical positions. Column names list individual IDs, row names list SNP IDs.</li><li><code>map</code>: 3,000 x 2 data matrix providing mapping to genetic distance (<squote>recombination distance</squote>) for each SNP.</li><li><code>colplot</code>: vector of length 50. Plotting color for each individual.</li><li><code>populations</code>: list of length 3. Character vectors giving the IDs of individuals in each population. IDs must map to the column names of the data matrix.</li></ul>

admix: Simulated Admixed Population Data

Description

Usage

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format

Details

References

Examples