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.
github: https://github.com/ctberthiaume
Publications
2025
2025
- PLOS One, Jun 2025
2024
2024
- Limnology and Oceanography, Nov 2024DOI: 10.1002/lno.12683
2019
2019
2018
2018
2016
2016
- Elementa: Science of the Anthropocene, Jul 2016
2015
2015
- Nature Climate Change, 2015DOI: 10.1038/nclimate2683
2014
2014
- Frontiers in Marine Science, 2014
- FEMS microbiology ecology, 2014
2012
2012
- Proceedings of the National Academy of Sciences, Feb 2012
2008
2008
- Proceedings of the National Academy of Sciences, Feb 2008