Category Archives: Bioinformatics

DIB Lab Retreat to Yosemite, February 2017

This past weekend, all of us in Titus Brown’s Data Intensive Biology (DIB) lab went to Yosemite Bug, which is just outside Yosemite National Park, for our first (annual?) lab retreat. We had a great time! I personally found it … Continue reading

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MMETSP re-assemblies

*** Update (9/27/2016): 719 assemblies now available at the links below. All FINISHED!!! *** Update (9/22/2016): 715 assemblies now available at the links below. I have *almost* finished re-assembling de novo transcriptomes from the Marine Microbial Eukaryotic Transcriptome Sequencing Project (Keeling … Continue reading

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Bioboxes Demo at UC Davis

Michael Barton, JGI sequencing QA/QC group DNA sequencing Evaluating scientific software Bioboxes, nucleotid.es Suggests reading Malcom McLean (The Box), who implemented idea for standardized cargo containers. All you have to do is load standard container from factory, fit onto truck, cargo ships, … Continue reading

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Docker hands-on workshop at UC Davis

Dr. C. Titus Brown, Docker hands-on workshop at UC Davis Lots of workshops available at UCD, open to everyone and free! (sign up, as max capacity is 40) Entry and intermediate levels available. Data Science Initiative is a hub for data science … Continue reading

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Physiology and Bioinformatics

Physiologists strive to understand how and why things work in living tissues. I’ve been trying to think about physiology in the context of my research interests in genomics and bioinformatics in nonmodel species. We don’t discuss this at all in … Continue reading

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