How many organs could you donate and remain alive? How many planet Earths could fit inside the Sun? How high is a giraffe's blood pressure? Why is the sea blue? To find out, Ask The Naked Scientists!
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#28 Space-efficient variable-order Markov models with Fabio Cunial
Manage episode 224120731 series 1537951
Contenido proporcionado por Roman Cheplyaka. Todo el contenido del podcast, incluidos episodios, gráficos y descripciones de podcast, lo carga y proporciona directamente Roman Cheplyaka o su socio de plataforma de podcast. Si cree que alguien está utilizando su trabajo protegido por derechos de autor sin su permiso, puede seguir el proceso descrito aquí https://es.player.fm/legal.
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!
Links:
- The preprint: A framework for space-efficient variable-order Markov models
- The book: Genome-Scale Algorithm Design
- The GitHub repo
If you enjoyed this episode, please consider supporting the podcast on Patreon.
70 episodios
Compartir
Manage episode 224120731 series 1537951
Contenido proporcionado por Roman Cheplyaka. Todo el contenido del podcast, incluidos episodios, gráficos y descripciones de podcast, lo carga y proporciona directamente Roman Cheplyaka o su socio de plataforma de podcast. Si cree que alguien está utilizando su trabajo protegido por derechos de autor sin su permiso, puede seguir el proceso descrito aquí https://es.player.fm/legal.
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!
Links:
- The preprint: A framework for space-efficient variable-order Markov models
- The book: Genome-Scale Algorithm Design
- The GitHub repo
If you enjoyed this episode, please consider supporting the podcast on Patreon.
70 episodios
Alle episoder
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Similar a the bioinformatics chat
How many organs could you donate and remain alive? How many planet Earths could fit inside the Sun? How high is a giraffe's blood pressure? Why is the sea blue? To find out, Ask The Naked Scientists!
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…
continue reading
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…
continue reading
This Week in Microbiology is a podcast about unseen life on Earth hosted by Vincent Racaniello and friends. Following in the path of his successful shows 'This Week in Virology' (TWiV) and 'This Week in Parasitism' (TWiP), Racaniello and guests produce an informal yet informative conversation about microbes which is accessible to everyone, no matter what their science background.
…
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