In order to make an application appear in the Homebrew Channel, the following steps must be taken:
1. Make a folder on the root of your SD card called "apps".
2. In the folder "apps," create a folder for the application (for this example, ScummVM will be used).
3. Copy the files for the application into its folder (e.g. apps/scummvm/).
4. Find the executable file (either .elf or .dol) and rename it to boot.elf (or boot.dol if it was a .dol file) if it is not already named that (e.g. apps/scummvm/boot.dol).
Now the application will appear in the Homebrew Channel. However, its appearance on the menu is difficult to distinguish from other applications. To fix this, text and an image can be added. More here