Biol 591 
Introduction to Bioinformatics
Notes : Hidden Markov Models
Fall 2002 

Thank you for visiting these notes. I don't expect you to read ahead much on the day an exam is due. If you are so inclined, you might do two things prior to coming to class:

1. Download and run the following program and its accompanying data set:

Hamlet.pl
HamletSpeech.txt    data for Hamlet.pl
Run the program, perhaps take a cursory look at it, then ponder on what kind of procedure might produce the observed output.

2. Take a look at the sections of the text Bioinformatics that discusses Hidden Markov Models:

pp.185-192    Introduction to Hidden Markov Models (HMM) and their use in multiple sequence alignments
pp.348-351    Use of HMMs in gene prediction