How can I remove: Public, Sartware, and TimeMachineBackup folders

Hello and welcome to the WD Community.

If you are planning to use the drive to do manual backup like (copy and paste), you just need to uninstall the applications from your computer and delete manually the folders from the drive like if you were removing a file on your computer.

Now, you are mentioning a Public folder, do you have a desktop drive or a network drive?