Some aircraft have brake pads in the top of the wheel well which rub against the tyres to stop them spinning.These are usually on the nose wheels where the retraction is in line with the spinning axis and there are no gyroscopic forces in play. These snubbers can make some interesting noises! Nose wheels are generally,but not always, unbraked. Main gear legs that retract sideways would have a gyroscopic problem if the wheels continue to spin whilst being retracted, so the wheels are automatically braked as part of the retraction sequence. The gyroscopic effect puts a twisting strain on the undercarrage leg fittings and is to be avoided. If I remember correctly, on a 757 for example, if one of the wheel brakes is inop(each of the four wheels on each main leg has an individually powered brake), apart from a T/O LNDG performance penalty,you had to wait for two minutes after takeoff before retracting the gear to allow the wheel to stop spinning.
On light aircraft with retractable gear,it is usual to dab the brake pedals before selecting the gear up for the same reason.