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See the annotated source code documentation generated beautifully with Docco:

• Search - this is the PHP script that generates the main page. Read this first, as it contains all the explanations for how to use the library in general.
• Initialization - this script is initializes the library and is used by all three other scripts. If you haven't looked at it while reading the annotated index.php, do so next.
• Suggest - a comparably simple script that handles search query suggestions.
• Tracking - a similarly simple script that handles user tracking.

Finally, see the library's wiki for more details about the internal workings of the library.

There is also a Guide for contributors.