bioinformatics chat

Seeding methods for read alignment with Markus Schmidt (#54)

December 16, 2020

In this episode, Markus Schmidt explains how seeding in read alignment works. We define and compare k-mers, minimizers, MEMs, SMEMs, and maximal spanning seeds. Markus also presents his recent work on computing variable-sized seeds (MEMs, SMEMs, and maximal spanning seeds) from fixed-sized seeds (k-mers and minimizers) and his Modular Aligner.

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Music: Eric Skiff — Come and Find Me (modified, licensed under CC BY 4.0).