The Megadata of Lake Mendota - Part 1: Many, Many Mers

Genome Insider

English - November 21, 2023 19:00 - 26 minutes - 18.1 MB
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Previous Episode: Experimenting with EcoFABs for Student Labs - Jill Bouchard & Ying Wang

Next Episode: The Megadata of Lake Mendota - Part 2: Souped Up Computing

Lake Mendota sits right next to the University of Wisconsin, Madison. And Trina McMahon's lab has been sampling the microbes of that lake for over 20 years, to understand how the freshwater ecosystem works.

So a few years ago, when they set out to analyze 500 metagenomes, it was the biggest project the JGI had ever put together.

The next 3 episodes are the story behind that giant assembly from Lake Mendota. In this episode: the software evolution that made metagenome assemblies like this possible.

Links from this episode:

Submit your own proposal to work with the JGI Episode Transcript The JGI’s Metagenome Program MetaHipMer The ExaBiome ProjectPaper: Hofmeyr, S., Egan, R., Georganas, E. et al. Terabase-scale metagenome coassembly with MetaHipMer. Sci Rep 10, 10689 (2020). https://doi.org/10.1038/s41598-020-67416-5

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