Trevor Pesout's guest appearances

Trevor Pesout

the bioinformatics chat

David Kelley

Irineo Cabreros

Romain Lopez

Gabriel Misrachi

Hassan Samee

Kristina Grigaityte

Jacob Schreiber

Simeon Carstens

HoJoon Lee

Seung Woo Cho

Kaushik Panda

Keith Slotkin

Fernando Portela

Chang Xu

Andrey Ziyatdinov

OwlTail

Long read sequencing technologies, such as Oxford Nanopore and PacBio,produce reads from thousands to a million base pairs in length,at the cost of the increased error rate. Trevor Pesoutdescribes how he and his colleagues leverage long reads for simultaneousvariant calling/genotyping and phasing. This is possible thanks to a cleveruse of a hidden Markov model, and two different algorithms based on this modelare now implemented inthe MarginPhase and WhatsHap tools. Links:  Preprint: Haplotype-aware genotyping from noisy long reads (Jana Ebler, Marina Haukness, Trevor Pesout, Tobias Marschall, Benedict Paten)  If you enjoyed this episode, please consider supporting the podcast on Patreon!

Long read sequencing technologies, such as Oxford Nanopore and PacBio, produce reads from thousands to a million base pairs in length, at the cost of the increased error rate. <a href="https://campusdirectory.ucsc.edu/detail.php?uid=tpesout" rel="nofollow" target="_blank">Trevor Pesout</a> describes how he and his colleagues leverage long reads for simultaneous variant calling/genotyping and phasing. This is possible thanks to a clever use of a hidden Markov model, and two different algorithms based on this model are now implemented in the MarginPhase and WhatsHap tools. Links: <ul> <li><a href="https://www.biorxiv.org/content/11.1101/293944v2" rel="nofollow" target="_blank">Preprint: Haplotype-aware genotyping from noisy long reads (Jana Ebler, Marina Haukness, Trevor Pesout, Tobias Marschall, Benedict Paten)</a></li> </ul> If you enjoyed this episode, please consider supporting the podcast on <a href="https://www.patreon.com/bioinfochat" rel="nofollow" target="_blank">Patreon</a>!

#29 Haplotype-aware genotyping from long reads with Trevor Pesout