pyperl provides perl embedding for python, but honestly it's not the way I'd go. I second Roboto's suggestion -- write a script that runs NCleaner (either processing from stdin to stdout, or working on temporary files, whichever one is more appropriate), and run it as a subprocess.
Or, since I see from the NCleaner page that it has a C implementation, use whatever facilities Python has for binding to C code and write a Python module that wraps the NCleaner C implementation. Then in the future the answer to invoking NCleaner from Python will just be "here, use this module."
Footnote: Inline::Python is better code than pyperl, and I would suggest using that instead, but it only supports having Python call back to Perl when Python is invoked from Perl in the first place -- the ability to embed Perl into Python is listed as a possible future feature, but it's been so since 2001, so don't hold your breath.