Spectrum-preserving string sets and simplitigs with Amatur Rahman and Karel Břinda the bioinformatics chat

In this episode, we hear from Amatur Rahman
and Karel Břinda, who
independently of one another released preprints on the same concept, called
simplitigs or spectrum-preserving string sets. Simplitigs offer a way to
efficiently store and query large sets of k-mers—or, equivalently, large de
Bruijn graphs.





Links:



Simplitigs as an efficient and scalable representation of de Bruijn graphs (Karel Břinda, Michael Baym, Gregory Kucherov)
Representation of k-mer sets using spectrum-preserving string sets (Amatur Rahman, Paul Medvedev)
Open mic





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