Great Lakes Invasive Species Control Act - Amends the Nonindigenous Aquatic Nuisance Prevention and Control Act of 1990 to apply requirements directing vessels equipped with ballast water tanks to carry out exchange of ballast water or alternative ballast water management methods prior to entry into any port within the Great Lakes to vessels that are not carrying ballast water. Directs the Secretary of the department in which the Coast Guard is operating to conduct a study of the effectiveness of alternative ballast water management methods in reducing the threat of invasive species to the Great Lakes.