You can certainly install your own window manager, even if you select Gnome or KDE (which, strictly speaking, are not window managers but desktop environments -- for example, Gnome typically uses the sawfish window manager and KDE typically uses the kwin window manager). You have at least two choices: (1) you can install your window manager to run under Gnome or KDE or (2) you can install your window manager and just run it directly, without either desktop environment (this is, in fact, the way X originally worked, before the advent of fancy desktop environments).
Hope this helps.
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