For creating the doxygen manual follow the recipe:
Creating Doxygen Reference Manuale
For a more comprehensive overview about doxygen:
Doxygen Manual
For insights about the doxygen configuration and the relative doxyfile.conf.ini:
Doxygen Configuration
doxyfile.conf.in
For learning more about doxygen special commands:
Doxygen Special Commands
For customizing the look of the generated doxygen manual pages, one can add (or replace) one's javascript and css rules into the toppage.html (whose name is set by default as the value of the HTML_HEADER parameter in the doxyfile.conf.in): Doxygen HTML Header

Last updated: A. Vedaee