Skip to contents

Ancestry_barchart()
 Plot an ancestry matrix for individuals and(or) populations.

Differentiation()
 A function to estimate three measures of genetic differentiation using geno files, vcf files, or vcfR objects. Data is assumed to be biallelic.

Fst_dat
 A genetic differentiation matrix and locality information for each population. This data was generated by subsetting data of Farleigh et al., 2021.

Het_dat
 A data frame of hypothetical heterozygosity data produced by Heterozygosity.

Heterozygosity()
 A function to estimate seven measures of heterozygosity using geno files, vcf files, or vcfR objects. Data is assumed to be biallelic.

HornedLizard_Pop
 A population assignment data frame to be used in
Heterozygosity
and Differentiation
.

HornedLizard_Pop
 A vcfR object to be used in
Heterozygosity
and Differentiation
.

Network_map()
 A function to map statistics (i.e., genetic differentiation) between points as a network on a map.

PCA()
 A function to perform principal component analysis (PCA) on genetic data. Loci with missing data will be removed prior to PCA.

Pairwise_heatmap()
 A function to plot a heatmap from a symmetric matrix.

Piechart_map()
 Plot a map of ancestry pie charts.

Plot_coordinates()
 A function to plot coordinates on a map.

Point_map()
 A function to map statistics as colored points on a map.

Private.alleles()
 A function to estimate the number of private alleles in each population.

Q_dat
 A list representing a qmatrix and the locality information associated with the qmatrix