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Chemistry on the Desktop
For this article, I thought I'd introduce another chemistry application—specifically, BKChem, a free chemical drawing program. As opposed to many other chemistry applications, BKChem provides both a...
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Pythonic Science in the Browser
In the past, if you wanted a friendly environment for doing Python programming, you would use Ipython. The Ipython project actually consists of three parts: the standard console interface, a Qt-based...
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Analyzing Videos for Fun and Profit
People's phones and all of the various sensors that may be built in to them is a source of scientific data logging that almost everyone carries around. Although the selection of sensors varies from...
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Gabedit: the Portal to Chemistry
Many chemistry software applications are available for doing scientific work on Linux. I've covered several here in previous issues of the magazine, and of them have their own peculiar...
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Jmol: Viewing Molecules with Java
Let's dig back into some chemistry software to see what kind of work you can do on your Linux machine. Specifically, let's look at Jmol, a Java application that is available as both a desktop...
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Solving Physics Problems on Linux
Several years ago, I wrote an article on using Elmer to solve complicated physics problems. Elmer has progressed quite a bit since then, so I thought it would be worth taking a fresh look at this...
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Image Processing on Linux
I've covered several scientific packages in this space that generate nice graphical representations of your data and work, but I've not gone in the other direction much. So in this article, I cover a...
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Slicing Scientific Data
I've covered scientific software in previous articles that either analyzes image information or actually generates image data for further analysis. In this article, I introduce a tool that you can use...
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Emacs for Science
I typically cover software packages that do actual calculations to advance scientific knowledge, but here I'm exploring a slightly stranger tool in the arsenal of scientific computation. more>>
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Visualizing Molecules with Python
Introducing PyMOL, a Python package for studying chemical structures. I've looked at several open-source packages for computational chemistry in the past, but in this article, I cover a package written...
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Using Python for Science
Introducing Anaconda, a Python distribution for scientific research. I've looked at several ways you could use Python to do scientific calculations in the past, but I've never actually covered how to...
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Evolving Your Own Life: Introducing Biogenesis
Much of the software I've covered in the past has focused on engineering, chemistry or physics. However, a growing number of software packages are being written to apply computational resources to...
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Introducing Spyder, the Scientific PYthon Development EnviRonment
If you want to use Anaconda for science projects, one of the first things to consider is the spyder package, which is included in the basic Anaconda installation. Spyder is short for Scientific PYthon...
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Taking Python to the Next Level
A brief intro to simulating quantum systems with QuTiP. more>>
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Weekend Reading: Using Python in Science and Machine Learning
Python is easy to use, powerful, versatile and a Linux Journal reader favorite. We've round up some of the most popular recent Python-related articles for your weekend reading. more>>
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