Exactly how you upload files to your web server will depend on the tools that your hosting site provides, or what your favourite remote file management tool is.
I tend to use WinSCP for managing my local server and this is also what I use for moving files to my webserver.
The web server’s file structure can be a little confusing, but this might help…
Otherwise, I’d suggest that, as others have said, you provide specific and detailed information about your setup and the exact problems you are facing.
Pete.