A precisely guided phototherapy apparatus for treating soft tissue injury, chronic pain, and promoting wound healing for both human and animal targets. The phototherapy apparatus comprises sensors for monitoring the intensity, position, and movement of the therapeutic light beam over the treatment area. The delivered light energy dosage is determined accordingly based on these parameters. The phototherapy apparatus further comprises a projector device for projecting markers on top of the treatment area. The markers represent the values of the delivered light energy dosage for assisting the practitioner or clinician in precisely controlling the phototherapy procedure.