Zooming Through Euler Path: Supercharging with GPU

So, continuing where we left off: Walking the Euler Path: Intro Visualizing Graphs Walking the Euler Path: GPU for the Road Walking the Euler Path: PIN Cracking and DNA Sequencing For the Win And finally I ran the GPU-enabled algorithm for finding the Euler path. And the results: Generating euler graph: vertices = 10,485,760; avg … Continue reading Zooming Through Euler Path: Supercharging with GPU

Walking the Euler Path: PIN Cracking and DNA Sequencing

Continuing on to some cool applications of Eulerian paths. Intro Visualization GPU/CUDA Injection The goal of this little graph experiment remains exploration of accelerating Eulerian path finding on the GPU. This is the final introductory post. Eulerian Path Hierholzer algorithm works great. It's linear in the number of edges, so as fast as we can … Continue reading Walking the Euler Path: PIN Cracking and DNA Sequencing

Motif Finding with Gibbs Sampling (F#)

The Problem "Motif finding is a problem of finding common substrings of specified length in a set of strings. In bioinformatics, this is useful for finding transcription binding sites" (recap here). The problem is succinctly stated on Rosalind. Given a set of strings DNA of size t, find "most common" substrings of length k. "Most common" means, that substrings … Continue reading Motif Finding with Gibbs Sampling (F#)