The methodology used in the early BYU studies is a very productive approach for traditional genealogists. It uses simple concepts, yet resolves many issues remaining after traditional research. It integrates DNA testing into the paper trail. DNA results are viewed as additonal evidence, rather than a cure-all for the lack of documentation.
One thing to keep in mind is that mutations are random events. With all the testing, someone is likely to encounter a highly unlikely event. Any statements about the number of markers constituting a match should be viewed as guidelines. Results must always be weighed against the paper trial. Ambiguous results may suggest testing more markers or branches.
The methodology is applicable to any surname project that has one or more documented family trees. It was used in the early Brigham Young University studies that led to the creation of the testing firm Relative Genetics. The Wells Project is a good example of how it can used to verify genealogies and match "orphan" lines to possible ancestors:
Of course, many projects are just looking for an answer to a single question, such as whether two ancestors with the same surname and living near each other were related. They will not need to learn all of the concepts.