ter ▁than ▁existing ▁de ▁nov o ▁tools ▁on ▁multiple ▁data ▁sets ". ▁This ▁algorithm ▁can ▁do ▁de ▁nov o ▁sequ encing ▁interpretation ▁of ▁L C Q , ▁L T Q ▁mass ▁spect rom eters ▁and ▁of ▁sing ly , ▁doub ly , ▁trip ly ▁charged ▁ ions . ▁D ifferent ▁from ▁other ▁algorithms , ▁it ▁applied ▁a ▁novel ▁scoring ▁function ▁and ▁use ▁a ▁mass ▁array ▁instead ▁of ▁a ▁spectrum ▁graph . ▁ ▁Fish er ▁et ▁al ▁proposed ▁the ▁Nov o H MM ▁method ▁of ▁de ▁nov o ▁sequ encing . ▁A ▁hidden ▁Mark ov ▁model ( H MM ) ▁is ▁applied ▁as ▁a ▁new ▁way ▁to ▁solve ▁de ▁nov o ▁sequ encing ▁in ▁a ▁Bay esian ▁framework . ▁Instead ▁of ▁scoring ▁for ▁single ▁symbols ▁of ▁the ▁sequence , ▁this ▁method ▁cons iders ▁posterior ▁prob abilities ▁for ▁am ino ▁ac ids . ▁In ▁the ▁paper , ▁this ▁method ▁is ▁proved ▁to ▁have ▁better ▁performance ▁than ▁other ▁popular ▁de ▁nov o ▁pe pt ide ▁sequ encing ▁methods ▁like ▁P ep N ovo ▁by ▁a ▁lot ▁of ▁example ▁spect ra . ▁ ▁P E A KS ▁is ▁a ▁complete ▁software ▁package ▁for ▁the ▁interpretation ▁of ▁pe pt ide ▁mass ▁spect ra . ▁It ▁contains ▁de ▁nov o ▁sequ encing , ▁database ▁search , ▁P TM ▁identification , ▁hom ology ▁search ▁and ▁quant ification ▁in ▁data ▁analysis . ▁Ma ▁et ▁al . ▁described ▁a ▁new ▁model ▁and ▁algorithm ▁for ▁de ▁nov o ▁sequ encing ▁in ▁P E A KS , ▁and ▁compared ▁the ▁performance ▁with ▁L ute