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Step 2: to consider each of the permutations for all periods.
For each of the permutations, the mapping atoms and bonds are merged, as are any atoms which coincidentally overlap.
The first random distribution was constructed by permuting the P. falciparum - P.berghei orthology relationships a 1000 times and computing the interspecies correlations for each of the permutations.
For each N genome, the pan-genome size and core genome for each of the permutations of genome comparisons was predicted.
The model is based on the median number of conserved genes in each of the permutations of all possible genome comparisons.
The pan-genome size and core genome for each of the permutations of genome comparisons was predicted for each N genome.
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We identified a nominal P -value for each of the 37 loci in each of the permutation results.
Each of these permutations of the original dataset were fitted with the final model determined based on the original dataset.
Each one of the permutation tests performs a test of the null hypothesis H 0: number of joinpoints = k a against the alternative H a : number of joinpoints = k b where k a < k b.
Our algorithm searches for ominous substrings by doing the following: for each element of the permutation we posit that it is a smallest element of a potential (after a reversal) bad component and continue by scanning the permutation to detect an ominous substring.
Within each of the 100 permutations, the statistical model (Model 6, see Results) was fit to the permuted data.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com