Close Xcode and delete the folder <username>.xcuserdatad from within <projectname>.xcodeproj/xcuserdata/. Then restart Xcode, the schemes should re-appear.
EDIT:
You may need to delete from .xcodeproj file and .xcworkspace file
Close Xcode and delete the folder <username>.xcuserdatad from within <projectname>.xcodeproj/xcuserdata/. Then restart Xcode, the schemes should re-appear.
EDIT:
You may need to delete from .xcodeproj file and .xcworkspace file