Summary: Show total scores from a scan of multiple pedigrees Argument: <'het'>
The "total" command can only be used after a successful "scan" command of multiple pedigrees. It will display the same 5 columns of output as the "scan" command produced for each pedigree, only now the columns will display the combined values of each statistic (sum of LODscores, combined NPL score, average information content, and p-values of the raw NPL score total). In addition to the screen display of this information (if the "postscript output" option is turned on) postscript graphs of the total NPL statistic (stored in npl_plot.ps), total LOD score (lod_plot.ps), and total information content (info_content.ps) will be created.
In addition two optional arguments may be entered. If the first argument is the word "het" then LODscores under heterogeneity will also be calculated alongside the regular LODscore sum. If a second numeric argument is provided after the word het, the LODscores under heterogeneity will be calculated assuming a fixed alpha (fraction of pedigrees linked - a number between 0.0 and 1.0). If this second argument is not provided, alpha will be allowed to vary until the HLOD is maximized.