I\'m looking for a way to convert the javadocs from my open source project (generated in Eclipse) to GitHub MarkDown, or come up with some other s
I don't think it's possible to make a usable Javadoc with MarkDown. The best solution is probably to commit the Javadoc you generated on the gh-pages branch (or in the docs/ directory depending on the settings of your project). It will be available at :
http://username.github.io/projectname
Here is an example from one of my projects:
http://ebourg.github.io/jsign/apidocs/