Doxepin and Amitriptyline belong to the same family of drugs called Tricyclic Antidepressants although they are used to treat other conditions as well. So the difference comes down to what it is prescribed to treat, avoid and Dr's preference. For example you are more likely to develop a heartbeat problem with Amitriptyine therefore it would be wise not to prescribe this drug for someone who has a heart condition. Additionally you would want to avoid contra-indications with other medications that the patient may be taking. There is also some differences in possible side effects. Ultimately the best person to ask is the Dr who prescribed the drug.
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