flash files get imbedded into an html page. either with the <embed> or <object> tags (ideally you will need both (ie uses <object> and NS uses <embed>).
using one design environment over another will not change the way that this works...
check out the source code for any page that has a flash element and you will see what i mean. if you want a design environment that easily handles flash , then get dreameweaver which does it in a snap...
hth