SAGE history and ODE solvers

Posted 12 December 2009 by alanzed
Categories: Math, Research

William Stein recently wrote up an interesting history of his trajectory in mathematics and creation of SAGE (which I’m a big fan of).   This document lead me to discover (Pyrex and) Cython, which looks very useful for my work.

Also, after reviewing and debugging my RKF method, I’m ready to use the scipy solution, scipy.integrate.odeint, which provides and interface to LSODA in the ODEPACK.   Getting to know ODEPACK intimately will be the key for implementing my ode.


Kinematic closure applied to protein folding

Posted 10 December 2009 by alanzed
Categories: Math, Research

Introduced to the work of Dr. Evangelos Coutsias at UNM, an read through a couple of his papers

Reviewing ODE solvers

Posted 5 December 2009 by alanzed
Categories: Research

Coded up primitive ODE solvers for Euler, RK2, RK4, RKF in Python on the plane and graphed comparative results.  Here they are for y' = 1 + y^2

The green points are Euler, red are Runge-Kutta second order, light-blue RK4, and small purple are Runge-Kutta-Fehlberg (lying on the blue line for the mathematical solution y= \tan(t + c)

CUDA articles

Posted 30 November 2009 by alanzed
Categories: Math, Physics

Read several interesting articles on the parallel programming architecture CUDA, some of which emerged from the SC 2009 conference, and some from the nVidia website.

Oblate spherical coordinates

Posted 29 October 2009 by alanzed
Categories: Math, Physics

Elliptical coordinates are defined in 2D and can be rotated around the x or y axis to yield 3D oblate spherical coordinates or prolate spherical coordinates.

Susskind classical mechanics

Posted 27 October 2009 by alanzed
Categories: Physics

Found a lecture from Susskind covering Poisson brackets.  (Note: this is lecture 9, and I believe lecture 1 actually follows chronologically, since the boardwork is leftover from lecture 9).

Gapminder and Hans Rosling

Posted 21 October 2009 by alanzed
Categories: Uncategorized

Hans Rosling has several videos aimed at making world health data more readily available at his website Gapminder.   First saw him through TED.