C# - Programmatically Set HTTP Handlers In .NET Application?

I need to dynamically instantiate a web application from a console application. By this definition, I mean that my console application contains a web application that is not bound to IIS/XSP.Currently, I create the web application into a temporary directory and copy some forged files into it. These are a special Global.asax that maps to my own implementation of HttpApplication to use in the web application (I need to do some initialization at app start), then I forge special .asmx files that map to my own skeleton classes and dynamic plugins

foreach (IPlugin plugin in _target.Plugins)
{
WsdlSkeletonDefinition[] defs = plugin.GetWsdlSkeletons();

My approach works, but I'm not so satisfied by it because I have to write lots of garbage into file system, even if I eventually delete it all.I know I can control HTTP handlers via Web.config, but I don't want to forge a Web.config for that. I would like to create a mapping such as I can remove the .asmx extension from web services' URLs and still get them.For example, one of the default scripts is "LogbusManagement.asmx", which must be hard-coded into client APIs and the .asmx prevents portability to other platforms such as PHP. I want to make "LogbusManagement.asmx" equivalent to "LogbusManagement" and any extension. For this, I might use an HttpHandlerFactory.

My straight question is,like asked here by somebody else: is there a way to programmatically, possibly from Global.asax, to set IHttpHandlers or IHttpHandlerFactories for web applications?