Figure 2 shows the odds ratio and corresponding P-value of each window.
Further evidence for the location of breakpoints was provided by plotting FONS, FORS-M, and FORS-D values of each window against its percentage of breakpoint overlap.
Pearson's correlations between annual mean of averaged daily value for each window and annual mean laying dates were used to determine the most relevant period for each environmental variable.
The value of each sliding window on the plot is shown via mouseover events, and the user may zoom in on a specific region of the plot by cropping the region through mouse dragging.
For this purpose, the variance of genomic breeding values for each window (= window genomic variance) was computed among individuals for every 100th iteration of the MCMC chain based on the marker effects sampled in that iteration.
In these two visual tools, instead of a unique p-value for each window with multiple testing correction, average p-values for all the windows a marker belongs to are drawn in order to reduce the chances of spurious associations.
A sliding window was set as a cluster of 60 consecutive probes, and normalized expression values of each sliding window were compared against 1124 probes spanning the regions of orf490 and orf181.
The matrix-specific SS value of each DNA sequence window was calculated by adding the PWM-determined scores corresponding to each of the respective bases within the window as described previously [31].
