Tag: computing

CRISPR resources from the Zhang Lab at MIT

Few things in biology take off like CRISPR genome engineering technology has recently. Feng Zhang’s lab at…



BITalino

The BITalino is a microcontroller platform that comes with an array of sensors including sensors for electromyography (EMG), electrocardiography (ECG), electrodermal Activity (EDA), and more.

They have several APIs, including Matlab, LabVIEW, Python, C#, and…



Plotly (plot.ly) for collaborative data visualization and analysis

It could be described as a GoogleDocs-type app for data analysis. But that would be a lazy description.

Import your data, code up the analysis and visualization, and then share with collaborators who can view, modify,…



Intel’s Minnowboard

About a year ago Labrigger covered the Raspberry Pi, a single board computer. In some ways, it’s like a high-powered Arduino, but really, it’s a miniature PC. Albeit, a PC that uses an ARM…



Wakari Bundles – standardized Python for sharing code

I’ve been using Spyder recently for a MATLAB-like Python development environment (thanks for the tip, xcorr!).

For python development within a browser window, I’ve used Wakari a bit. Now they have …



HG2 for Better Graphics in MATLAB

Undocumented MATLAB has an in depth look at the next generation graphics handler for MATLAB which you can use today, although it’s not officially released yet. Use the command line option “-hgVersion 2” when…



Python IDEs for science

xcorr has done a nice series of reviews of IDEs for scientific Python: First, Second, Third

Previously
Online scientific Python
NEURON and Python



Get the computation done

Programming that happens in labs is typically rushed and sloppy. The goal is to get the job done right, and, almost as…



Make MATLAB text you

Patrick Mineault covered this back in November in his always interesting xcorr blog.

Using some…



Online Scientific Python: Wakari

If you like Python, want to analyze data online, and are interested in a standardized environment that can be easily shared, read on:

Continuum Analytics is offering a new beta: Wakari. You can register…



Raspberry Pi – Arduinolike form and price, but with way more power

RDUINO A



DIY Superresolution

Quickpalm is an open source software package for DIY PALM and STORM implementations. They’re responsive on their discussion forum and have a wiki with a decent amount of technical information.



SOFA, open stats

If you’d like to read some deep, wide-ranging philosophical discussions about R, an open statistics software package, then I wonder why we’re friends. But since we are, here are some links, you psychopath:
“R is a programming language missing a GUI”



GIMP 2.8

GIMP is an open source image editing program. You can use it for a lot of the same things Adobe Photoshop is used for.

They just released version 2.8 (release notes).

In addition to GIMP,…



Nature article on releasing source code

Nature just published a 4-page perspective article on the important of releasing the source code for programs used in scientific research. The authors emphasize the importance of reproducibility for results that…