data.block {conStruct}

Example data.block generated by a conStruct analysis

Description

An example data.block object generated in a conStruct analysis from the raw data supplied by the user. This object is automatically saved and is used in several subsequent plotting functions.

Usage

data.block

Format

A list with 7 elements:

N

the number of samples included in the analysis

K

the number of clusters/layers included in the model

spatial

a boolean indicating whether the spatial model has been specified

L

the number of loci included in the analysis

coords

a matrix with one row for each of the N samples, in the same order as that of the obsCov matrix, and two columns, the first giving the x-coordinate (or longitude), the second giving the y-coordinate (or latitude)

obsCov

the sample allelic covariance matrix, in the same order as that of the coords matrix, with N rows and columns

geoDist

a matrix of pairwise geographic distance between , samples in the same order as that of the obsCov, with N rows and columns

sd.geoDist

the standard deviation of the raw geographic distance matrix, used for normalizing geoDist within the stan model

varMeanFreqs

the variance of the mean allele frequencies, averaged over choice of counted allele (passed to the model as a prior on the global covariance parameter)