1. A method of tracking quality measures in one or more documents, wherein said documents are respectively associated with content abstracted from the documents, said method comprising: determining that the one or more documents belong to a collection of documents that correspond to a single patient encounter; determining, based on the abstracted content, a quality measure category; obtaining a quality measure definition corresponding to a quality measure included in the determined quality measure category, said definition including at least one quality measure criterion, keywords corresponding to the at least one quality measure criterion and queries corresponding to the at least one quality measure criterion; determining, based on the keywords corresponding to the criterion, whether a portion of the abstracted content satisfies the at least one quality measure criterion; determining that no information was located in the documents satisfying the at least one quality measure criteria; selectively generating, based on the quality measure definition, a report including the query corresponding to the criterion, a query response, and indicates criteria in the definition for which no abstracted content satisfying the criteria was included in the collection of documents; determining that the patient encounter is ongoing; and generating an alert to take an action for satisfying the at least one quality measure criteria that has not been satisfied, while the encounter is ongoing.