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Wednesday, August 2 • 11:40 - 12:00
Metagenome assembly from synthetic long reads using de Bruijn graphs

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Despite rapid progress in sequencing technologies metagenome assembly remains challenging: short reads result in fragmented assemblies while long reads (e.g., reads generated using Pacific Biosciences or Oxford Nanopores technologies) remain expensive for metagenomics applications. Although the recently introduced 10X GemCode Synthetic Long Reads (SLR) technology promises to become a step forward in metagenome assembly, it faces a number of computational challenges. In this talk, we will present cloudSPAdes algorithm for metagenome assembly from GemCode SLRs that, in difference from previous approaches to metagenome SLR assembly, utilizes the de Bruijn graph for resolving repeats and strain variations. We will demonstrate that cloudSPAdes results in superior assemblies than existing state-of-the-art SLR assembly approaches.


Wednesday August 2, 2017 11:40 - 12:00
Graduate School of Management Building, room 309 Volkhovskiy Pereulok, 3, St. Petersburg, Russia