Hello! I am a computational biophysicist with experience in minimal method development, elastic rods, liquid-liquid phase separation, research software engineering and high-performance computing. Previous: FFEA Group at Leeds, Collepardo Lab at Cambridge. Current: computational scientist at the STFC. You can get in touch with me at [email protected]. While you're here, please take a look at my CV and LinkedIn profile!
My research interests include kirchoff rods, molecular dynamics, and coarse-grained simulations at the molecular mesoscale. I have experience in high-performance computing, development and design of simulations, molecular dynamics, mathematical logic, computational biophysics, photonics and optics, and statistical mechanics.
KOBRA: Fluctuating Elastic Rods for Slender Biological Macromolecules
KOBRA is a fluctuating Kirchoff elastic rod algorithm for performing dynamical simulations of slender biomolecules, such as alpha-helices and coiled-coils. It can support parameterisations of objects with arbitrary equilibrium shapes and inhomogeneous, anisotropic material parameters, and it can reach second-scale trajectories of quite large systems on modest workstation hardware. It's written in C++ and is released, for free, under the GPLv3 free software license. So far, KOBRA has been used to build models of Ndc80C, the SMC complex and Myosin-V, and may soon be deployed to study COVID-19 spike proteins. This page will contain links to the KOBRA publication, my PhD thesis, download links and installation instructions.
The Physics and Thermal Characterisation of Sharp LEDs
As you probably know, halogen light bulbs are incandescent: they produce light as a side effect of being heated up. Conversely, LEDs are semiconductor devices, and prolonged heat can be very damaging to them. LED devices tend to be cooled in a similar way to computer CPUs - using a thermal interface (like thermal paste) a heatsink, and sometimes a fan as well. However, the effectiveness of these cooling methods can vary wildly, depending on the operational limits of the LED and the type of thermal interface being used. In this article, I'll discuss the experimental methods I designed to characterise the thermal performance of LEDs using a variety of cooling methods.