About Me

Hi! I'm Russell.

I'm a microbiologist who uses graph theory and machine learning to study the relationships that bacteria and archaea form with their host organisms, and lately giant viruses and their hosts. Or, I'm a computer scientist who builds software that uses concepts from evolution to extract knowledge about ecology from large datasets. Or, I'm a data scientist who uses Python to explore biological systems. Or, I'm a physicist that went rouge and defected to the squishy side of science. Take your pick.

I am an assistant professor at Kyoto University Institue of Chemical Research in the Ogata Laboratory.

Other places you can find me

🪴 Blog : Vort.org
🦣 Mastodon : @ryneches@ecoevo.social
📜 Scholar : ryneches
✒️ ORCID : 0000-0002-2055-8381
🦃 Stupid bird webpage : @ryneches
📸 Flickr : https://www.flickr.com/photos/rneches/
⚗️ Laboratory : 京都大学化学研究所

My Projects

  • SuchTree A Python library for doing fast, thread-safe computations with phylogenetic trees.
  • 木槌 : kizuchi A snakemake workflow for building gene trees from HMM profiles.
  • Dilution Plates A high-throughput liquid handling solution using single-use 3D printed parts in lieu of a liquid handling robot.
  • Mini workbench A carpentry workbench for use without a dedicated workshop space.
  • dissertation A graph-based index of my Ph.D. dissertation.

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