Code
shopt -s extglob
cp -r !(Backups.backupdb) /home/masi/Documents/
cp -r !(Applications.noindex) /home/masi/Documents/
where note that you cannot use forward-flash in the glob environment although TAB-completion gives it to you, as described in the thread Why extglob except breaking except condition?
How can you combine the two NOT clauses in extglob?