This tab displays the odds ratio volcano plots from all the annotation groups in a single display.
Note: This tab is named Trends Odds Ratio Plot when either when no Annotation Group Variable is specified or when there is only one annotation group.
The y-axis variable of this scatter plot is the p-value from the association test, converted to the -log or -log10 scale if selected in the process dialog. The x-axis plots the log of the odds ratio for each marker. If the log odds are 0, then the odds ratio is 1 implying the odds of being affected with the disease (or whatever the trait variable represents) is the same for any number of minor alleles at that particular SNP. Values on the x-axis greater than 0 represent odds ratios greater than 1, and thus the odds of being affected increases with the number of minor alleles composing the genotype. The opposite is true for log odds less than 0. A horizontal reference line is drawn as a red, dashed line at the significance level that was specified. For -log- or -log10-converted p-values, markers above this line are significant; for p-values on the original scale, markers below the line are significant.
Note: Odds ratio volcano plots are generated only for binary traits and only when the Calculate trend odds ratios check box is checked.
See Volcano Plot for more information.