Bradley Jones
Postdoctoral Fellow at Simon Fraser University
Vancouver, British Columbia, Canada
Summary
👤
Senior🎓
Top SchoolBradley Jones is a bioinformatician and postdoctoral fellow at Simon Fraser University with a decade of experience applying combinatorics and computer science to viral phylodynamics and comparative genomics. He has driven bioinformatics projects at public health centres, developing R pipelines to simulate HIV dynamics and investigate HCV drug resistance, and evaluating large-scale genomics tools on cloud infrastructure. Bradley contributes to notable open-source work on ggtree, enhancing phylogenetic visualization and tree-manipulation methods that bridge data frames and treedata classes. His background in mathematics (MSc, BSc) and a PhD in Bioinformatics gives him a rare mix of theoretical rigor and practical software engineering—he even implemented Maple proofs and production-ready Python/C++ tools earlier in his career. Based in Vancouver, he combines academic research with hands-on tooling to make complex viral evolution analyses reproducible and visually accessible.
10 years of coding experience
14 years of employment as a software developer
Doctor of Philosophy (PhD), Bioinformatics, Doctor of Philosophy (PhD), Bioinformatics at The University of British ColumbiaMaster of Science (MSc), Mathematics, Master of Science (MSc), Mathematics at Simon Fraser University
English
Github Skills (6)
visualization10
ggplot10
visualizations10
r10
annotate9
annotations9
Programming languages (4)
Github contributions (5)
YuLab-SMU/ggtree
Dec 2016 - Feb 2020
:christmas_tree:Visualization and annotation of phylogenetic trees
Role in this project:
Data Scientist
Data ScientistContributions:1 review, 23 commits, 17 PRs in 3 years 2 months
Contributions summary:Bradley primarily contributed to the development and modification of functions within the `ggtree` R package, specifically focusing on methods related to phylogenetic tree visualization and manipulation. Their work involved adding new functionalities like the `get.tree` method for data frames, rerooting capabilities, and integrating with the `treedata` class. They also implemented new layouts and corrected existing functionalities within the package. The user also worked to enhance visualization capabilities.
christmas-treetreestree-visualizationannotationsggplot2
brj1/treeio
Nov 2017 - Feb 2025
:seedling:Base Classes and Functions for Phylogenetic Tree Input and Output
Contributions:45 pushes, 11 branches in 7 years 3 months
gleamseedlingtlabase-classesfuzzy-logic
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