Biochemical simulations on GPU

My second project is a CUDA implementation of Smoldyn simulator. Smoldyn is cell-scale biochemical simulator which simulates each molecule of interest individually to capture natural stochasticity and for nanometer-scale spatial resolution. This is a particle-based method that allows simulation of chemical molecules with Brownian motion and different reaction types.

GPU-based Direct Simulation Monte Carlo

It's been a while since my last post. Lots of things have changed. Now I'm a PhD student at UW-Milwaukee and a research assistant at the Complex Systems Simulation Lab. In this post I will describe my first project which is a GPU (CUDA) implementation of DSMC method for particle simulations.

DSMC is a computational method for fluid mechanics simulation. Simply put, it can be used for simulation of interaction between gas molecules and a solid body. For example, the case, when a space ship enters the atmosphere can be simulated. The method is relatively simple, but it requires simulation of huge number of molecules for an accurate result, so it is a good candidate for parallelization.

VNC for Mac

Set up remote access to my Mac. Server is VineVNC for Mac OS X. Client is TightVNC for WinXP. Works well. Now I can develop iPhone applications from around the world :) (even from iPhone with Mocha VNC).

Java bytecode cross-compilation for iPhone

Just have seen a pretty interesting lecture about Java bytecode cross compilation for iPhone on Google Tech Talks. I assume this may let iPhone developers not to study ObjC (which pretty nice though). I guess it would be interesting to try load such cross-compiled application to real device or even to AppStore. Maybe I will try to do that.

Lecture

Slides

Check it out later :)

Hello World!

Hi, here is a first message in my shiny new blog :)

Check it out later!