it would be a great feature to have the possibility to pass values in "where" filter as parameters while running comparisons from the command line:

datacompare.com /datacompare /compfile:"D:\mycompdoc.dcomp" /param:<par1>,<val1>[;<par2>,<val2>;...]

and in mycompdoc.dcomp we have

...
<Object SourceName="MyTable" TargetName="MyTable" SourceType="Table"
TargetType="Table"> <SourceFilter>MyCol in (0,@par1,@par2)</SourceFilter>
</Object>
...