Thanks for your question. I suppose you have two approaches that you can use -- one would be to create the mappings automatically, loop through all matching mappings, and set the "Included" property to false on all of them except the table or view that you want to compare.
The other mapping approach would be to manually construct
a table mapping in code and then add it to a manually-constructed TableMappings collection.
To compare a subset of data, you can apply a "WhereClause" to the mapping to limit the data to the records that you want to compare and synchronize. There are many ways to filter the data
in either the comparison or synchronization processes.