Depends what your goals and needs are. And the lines are blurred in any case. I own cars with both (or all three, depending on your level of pedanticism): Auto (torque converter), auto-manual (computer controlled clutch), and traditional manual. I prefer the interaction of the manual(s), though the paddle-shifters are amusing, and certainly faster/easier to use when lapping. For 'drag' racing, the auto can be the quickest: the 'tiptronic' auto Porsche turbo accelerates slightly more quickly than my full manual model - the turbocharges can work against the torque converter to be on-boost rapidly.
For gas mileage - manual rules when properly used.
Pick what you like...