One approach is to explicitly get information about scopes in your application and perform manual validation (or through some framework, like Spring Security in Java world).
Scope information for oauth token can be found by sending request to validation web service at Identity Server (or Api Manager server, if you do not have separate IS).
Validation service endpoint is: services/OAuth2TokenValidationService/
WSDL file for this SOAP service can be found in their repository
EDIT: Since Api Manager 1.7 you can define this security settings in manager itself. Check out this blogpost for details: http://nuwanzone.blogspot.ru/2014/06/oauth-20-scopes-with-wso2-api-manager.html