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Author Archives: Dan Gezelter
LiveGraph: Real-Time Plotter and Exploratory Data Analysis Tool
Plots data live – while it’s being produced by any application. * Very simple point-and-click interface. * Fully automatic intelligent graph layout. * Single click graph transformations: Linear, Logarithm, Unit Interval, etc. * Time axes support. * APIs for integration … Continue reading
Posted in 2D Plotting
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PyBLAW
PyBLAW is a lightweight Python framework for solving one-dimensional systems of hyperbolic balance laws of the form q_t + f(q)_x = s(q). Find PyBLAW at: http://memmett.github.com/PyBLAW/
Posted in Numerical Methods
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PyWENO (Python WENO)
PyWENO is a Python implementation of one-dimensional Weighted Essentially Non-oscillatory (WENO) approximations over unstructured (non-uniform) grids. Find PyWENO (Python WENO) at: http://memmett.github.com/PyWENO/
Posted in Numerical Methods
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Packmol
One of the biggest issues you face when you first start doing molecular dynamics (MD) simulations is how to create an initial geometry that won’t blow up in the first few time steps. Repulsive forces are very steep if the … Continue reading
Posted in open science, Science, Software
13 Comments
Gwyddion – Open Source SPM analysis
We just discovered a very cool open source program for analyzing scanning probe microscopy (SPM) data files. There a number of incompatible and proprietary file formats for surface microscopies (AFM, MFM, STM, SNOM/NSOM) and getting data out from a microscope … Continue reading
Posted in open science, Science, Software
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Open Science on “Future Tense”
Yesterday’s “Future Tense” radio program on Australian Broadcasting was just posted online. The topic was Open Science, and I managed to get interviewed for the show. The interview with Anthony Funnell was a great conversation, and he’s pulled out some … Continue reading
Posted in Uncategorized
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If you’re going to do good science, release the computer code too
A very nice aarticle by Darrel Ince has just been posted over at the Guardian. It deals with the climate-gate email theft and the quality of academic science code has just been . An excerpt: Computer code is also at … Continue reading
Posted in open science, Science, Software
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Kitware has a blog!
Geoff Hutchinson just pointed us to the new blog over at Kitware (the makers of VTK). I’ve found VTK enormously helpful in the past (particularly the source to vtkMath.cxx) and I’m glad they’ve made the commitment to Open Source. My … Continue reading
Posted in open science, Software
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Being Scientific: Falsifiability, Verifiability, Empirical Tests, and Reproducibility
If you ask a scientist what makes a good experiment, you’ll get very specific answers about reproducibility and controls and methods of teasing out causal relationships between variables and observables. If human observations are involved, you may get detailed descriptions … Continue reading
Posted in Open Data, open science, Science
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jHepWork
Posted in Computational
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