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There should be plenty of examples on the wiki. Also, it helps if you are familiar with CMake, as you need to adapt the CMakeLists.txt.

Below a list of links that should answer all your questions:

http://docs.ros.org/api/catkin/html/howto/format2/index.html
http://wiki.ros.org/ROS/Tutorials/BuildingPackages
http://wiki.ros.org/catkin/CMakeLists.txt

Passing in command line arguments is done just like for any other C++ program. This also works with rosrun

rosrun my_package my_node my_arg1 ...

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