Space-efficient variable-order Markov models with Fabio Cunial (#28)
December 28, 2018
This time you’ll hear from Fabio Cunial on the topic of Markov models and space-efficient data structures. First we recall what a Markov model is and why variable-order Markov models are an improvement over the standard, fixed-order models. Next we discuss the various data structures and indexes that allowed Fabio and his collaborators to represent these models in a very small space while still keeping the queries efficient. Burrows-Wheeler transform, suffix trees and arrays, tries and suffix link trees, and more!
- The preprint: A framework for space-efficient variable-order Markov models
- The book: Genome-Scale Algorithm Design
- The GitHub repo