It sounds as though you need to make a Transparency Map, which is a special sort of texture map. White is visible. Black is totally transparent. If you've already made texturemap with a template, making a transmap is no different. Once you have it, you use it just like a texture map, but applied to the object Transparency. There are some differences between Poser version in the details of how you set this up -- you may have to adjust some other settings. I've also found it can help to apply the transmap to the specular input, to kill reflections from the transparent parts of the object. In Poser 5/6 the transmat will switch on and off the other settings.