We will term the LOD score for ifixed at locus j L ifixed,j) and will designate the permuted LOD scores for all permutations except ifixed as Lperm(i',j).
In contrast, depression scores in healthy volunteers did relate to positive, neutral and negative color choice and reached significance for all permutations except 2 and 4 which showed a trend in the same direction.
Most pairwise FST comparisons were significant by permutation test except for populations in close proximity to each other (Table 4).
We ran 500 permutations for each test (except CMC, for which an asymptotic test is available [11]).
However, in two other assays, in vitro processing of either fusion proteins or oligopeptides, this peptide proved to be the worst TEVp substrate of all 20 permutationsions tested, except ENLYFQP for which no cleavage could be observed at all [18].
Then, Mantel test was performed with default set except for permutations of 9,999.
For each scenario simulated, we evaluate the tests at the 2-tailed.05 α level and at the 2-tailed.01 α level using 5,000 simulated datasets per scenario (except for permutation tests where we use 1,000 datasets per scenario and 1,000 random permutations by Monte Carlo sampling for each dataset).
A simple modification of Proposition 1 reveals that our model is canonical except for permutation.
Moreover, GENECONV (Sawyer 1989) was also applied to detect possible gene conversion events with default parameters except for 100,000 permutations that were performed to calculate the confidence for each gene conversion event.
Our method (PF-ISFA) outperformed FD-ISFA with permutation solver for all criteria except for SAR under all conditions.
