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In general, the set of well-chosen, informative summary statistics S α is not known in advance.
We use informative summary statistics about the recombination process such as LD, homoplasy, and G4 to infer parameters.
In effect, the likelihood is approximated through a distance metric on a set of informative summary statistics between the simulated and observed data.
In the case of local choice of summary statistics, the procedure of defining informative summary statistics based on the candidate statistics was run for each test data set separately.
We selected a total of six biologically informative summary statistics that collectively capture the size, position and permeability of candidate barriers: area, perimeter, maximum latitudinal range (controlling for longitude, max latitude minus min latitude), mean distance from equator (based on the absolute value of the centroid of each barrier), perimeter-to-area ratio, and fragmentation.
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Padhukasahasram et al. (2006) describe a rejection-sampling method that simultaneously utilizes informative long-range and short-range summary statistics to infer the recombination parameters.
The most widely used summary statistics that are informative about the recombination process are LD, homoplasy, and incompatibility between pairs of sites (meaning for biallelic sites, all four possible haplotypes are present, G4).
For instance, we could use GWAMA summary statistics to define informative prior distributions for SNP effects, or to (re -weight the SNP contre -weight e.g. similar thethe weighted G-BLUP model propoSNP in (25).
Therefore, we propose algorithm B a modified version of algorithm A that includes an additional step for the empirical choice of summary statistics S α informative on α given a set of candidate statistics, S (for similar approaches, see Hamilton et al. 2005; Wegmann et al. 2009): B1.
Modelling provides a more informative summary of the data from a dose investigation trial than descriptive statistics alone could give 17.
Since one of the parameters we need to infer is the mutation rate θs, we included in the summary statistics the proportion of segregating sites S that is highly informative about this parameter (Watterson 1975).
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