Structure
 continued from yesterday ...
Things I learned from chatting with Rulon
 standard is to run a few iterations of each value of K
 do NOT unclick "Compute probability of data (for estimating K)" ... this generates the Ln P(D) statistic that is reported in publications
 can average the Ln P(D) values for each value of K ... the most positive value of Ln P(D) is the K that Structure likes best

 averaging the 3 iterations of each value of K ... K=1 gives most positive Ln P(D) ... :(
GENEPOP
 Option 1  HardyWeinberg exact test
 suboption 3  exact tests
 Option 2  Linkage disequilibrium
 suboption 1  each pair of loci, log likelihood ratio
 Option 3  Population Differentiation
 suboption 3  genotypic differentiation for all populations
 Option 5  Basic Information
 suboption 1  basic info (genotypic matrices, number observed/expected homozygoes/heterozygotes, allele frequencies)
 saved all output to GenePop folder
 using Riley et al 2006 as framework for which analyses to run
 they report (in supplement, Table S2) observed and expected heterozygosities for each locus as well as overall
 where do they get that from GenePop?
 looks like they gotta calculate it themselves:
 H_{o} = (number observed heterozygotes) / (number observed heterozygotes + number observed homozygotes)
 H_{o} overall = average of each locus H_{o}
 but don't know how they get an 'overall' for each locus  it's not the average
Things I learned from chatting with Rulon
 try FSTAT ... see if that'll give you H_{o} straight up
