Multiple wifi adapter control

I have 2 wifi adapters, an internal board mounted and a PCI card module. Is there an application that could give me control over what they connect to? I want one of them (specified) to connect to one network and the other to connect to another network. Or if I set one as down (using ip link down)to stay down (it keeps coming back up periodically). Just looking for a better way to control the adapters.