I support reproducible computational research in the Armbrust Lab. My primary focus is working with the SeaFlow instrument, our in-house continuous flow cytometer. I write software to analyze SeaFlow data (seaflowpy, popcycle), manage the data itself, and create systems for realtime collection, processing, and monitoring of SeaFlow data while at sea. I’ve also worked on a number of genomics projects in the Armbrust Lab involving RNA microarrays, Sanger and 454 EST library creation, SOLiD and Illumina short-read transcriptomes and genomes, and de novo SOLiD short-read metagenomic assemblies.
Elementa: Science of the Anthropocene, Jul 2016
Nature Climate Change, 2015DOI: 10.1038/nclimate2683
Frontiers in Marine Science, 2014
The genetic potential for key biogeochemical processes in Arctic frost flowers and young sea ice revealed by metagenomic analysisFEMS microbiology ecology, 2014
Comparative metatranscriptomics identifies molecular bases for the physiological responses of phytoplankton to varying iron availabilityProceedings of the National Academy of Sciences, Feb 2012
Whole-genome expression profiling of the marine diatom Thalassiosira pseudonana identifies genes involved in silicon bioprocessesProceedings of the National Academy of Sciences, Feb 2008