A method for placing a set of one or more markers in a luminal network in a patient's body includes using at least one hardware processor for receiving image data of the anatomy of a luminal network of a patient and a location of at least one target in the luminal network anatomy, obtaining a rule set defining one or more rules for placing the set of one or more markers in the luminal network anatomy and with respect to the at least one target, during a survey performed by a user via a navigation module in a portion of the luminal network surrounding the at least one target, acquiring, via the navigation module, sample-locations in the surveyed portion of the luminal network, and identifying a set of one or more marker locations for placing the set of one or more markers from the acquired sample-locations, which complies with the rule set.