Here is a list of all documented files with brief descriptions:

code
hal
disk.h	HAL disk functions
file.h	HAL file functions
flash.h	HAL flash functions
shared.h	Shared structs, error codes, and functions for all HAL files
standard.h	Miscellaneous/Utility HAL functions
usb.h	HAL USB functions
src
lua
lua_functions.h	References for all of the lua functions
wlua.h	Basic functions to setup the lua functionality
wlua_fops.h
wlua_usb.h
usb
pub_disk.h	High-level code for creating a "fake" public-facing disk
wusb.h	High-level code for setting up the USB stack