PPT-Hidden Markov Models (HMMs)

Steven Salzberg CMSC 828H Univ of Maryland Fall 2010 2 What are HMMs used for Real time continuous speech recognition HMMs are the basis for all the leading products Eukaryotic and prokaryotic gene finding HMMs are the basis of GENSCAN Genie VEIL GlimmerHMM TwinScan etc. Shabana. . Kazi. Mark Stamp. HMMs for Piracy Detection. 1. Intro. Here, we apply metamorphic analysis to software piracy detection. Very similar to techniques used in malware detection. But, problem is completely different . 1. 2. K. …. 1. 2. K. …. 1. 2. K. …. …. …. …. 1. 2. K. …. x. 1. x. 2. x. 3. x. K. 2. 1. K. 2. Example: The Dishonest Casino. A casino has two dice:. Fair die. P(1) = P(2) = P(3) = P(5) = P(6) = 1/6. First we saw the finite state automaton. The rigid non-stochastic nature of these structures ultimately limited their usefulness to us as models of DNA. 1. 2. 3. 4. 5. 6. 7. 8. S. e. g. g. g. g. c. g. February 2011. Includes material from:. Dirk . Husmeier. , . Heng. Li. Hidden Markov models in Computational Biology. Overview. First part:. Mathematical context: Bayesian Networks. Markov models. Hidden Markov models. First – a . Markov Model. State. . : . sunny cloudy rainy sunny ? . A Markov Model . is a chain-structured process . where . future . states . depend . only . on . the present . state, . February 10, 2010. Hidden Markov models in Computational Biology. Overview. First part:. Mathematical context: Bayesian Networks. Markov models. Hidden Markov models. Second part:. Worked example: the occasionally crooked casino. notes for. CSCI-GA.2590. Prof. Grishman. Markov Model . In principle each decision could depend on all the decisions which came before (the tags on all preceding words in the sentence). But we’ll make life simple by assuming that the decision depends on only the immediately preceding decision. Sushmita Roy. sroy@biostat.wisc.edu. Computational Network Biology. Biostatistics & Medical Informatics 826. Computer Sciences 838. https://compnetbiocourse.discovery.wisc.edu. Oct 25. th. 2016. Sushmita Roy. sroy@biostat.wisc.edu. Computational Network Biology. Biostatistics & Medical Informatics 826. Computer Sciences 838. https://compnetbiocourse.discovery.wisc.edu. Oct . 25. th. , 27. Hidden Markov Models Teaching Demo The University of Arizona Tatjana Scheffler tatjana.scheffler@uni-potsdam.de Warm-Up: Parts of Speech Part of Speech Tagging = Grouping words into morphosyntactic types like noun, verb, etc.: Hidden Markov Models IP notice: slides from Dan Jurafsky Outline Markov Chains Hidden Markov Models Three Algorithms for HMMs The Forward Algorithm The Viterbi Algorithm The Baum-Welch (EM Algorithm) Jurafsky. Outline. Markov Chains. Hidden Markov Models. Three Algorithms for HMMs. The Forward Algorithm. The . Viterbi. Algorithm. The Baum-Welch (EM Algorithm). Applications:. The Ice Cream Task. Part of Speech Tagging. Zane Goodwin. 3/20/13. What is a Hidden Markov Model?. A . H. idden Markov Model (HMM) . is a type of unsupervised machine learning algorithm.. With respect to genome annotation, HMMs label individual nucleotides with a . BMI/CS 776 . www.biostat.wisc.edu/bmi776/. Spring . 2018. Anthony Gitter. gitter@biostat.wisc.edu. These slides, excluding third-party material, are licensed . under . CC BY-NC 4.0. by Mark . Craven, Colin Dewey, and Anthony Gitter.