What has 'rm -r ~' done to my home directory?

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http://askubuntu.com – gedit creates hidden backup files ending with '~'. I wanted to do a recursive cleanup of my directory tree. The command rm *~ will delete all local files ending with '~' I thought rm -r *~ . would delete all files in the whole tree, but I typo-ed rm -r ~. There was a message some directory could not be deleted and I quit the command. The question is: What have I been deleting? I did notice that my Filezilla configuration was gone. Does this command delete all hidden directories from the home dir? (HowTos)