When you wake up and meditate on the point between the eyes, the Third Eye, the Window to the soul, meditate on living in Divine consciousness. Imagine your consciousness being uplifted to this point, and all of your subsequent actions for the day flowing from that point. Meditate on separating the Brahman within you from the conditioned, mortal being, separating the wheat from the chaff as Christians would say.
The human body is an inverted tree. The top of the head is the root, where we are planted firmly in the soil of the Divine. The branches that grow below are the parts of us that are conditioned by Maya. The leaves die and come back, but the root remains season after season. Imagine yourself rooted in that Divine consciousness, and imagine all of your sickness and impurity flowing downward into your lower chakras, where they leave your body or dissolve in the Divine consciousness which you now feel pervading your entire being.
I have come to be convinced that in this way we can destroy the effects of karma or lessen our need for repeating the cycle of birth, old age, sickness and death, and rebirth. It is the point of prayer, but only in Divine consciousness. That is why sometimes prayer “works” and sometimes it doesn’t.