CRISPR resources from the Zhang Lab at MIT
Posted in Software
Few things in biology take off like CRISPR genome engineering technology has recently. Feng Zhang’s lab at MIT…
Tag: computing
Plotly (plot.ly) for collaborative data visualization and analysis
Posted in Software
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, and…
Intel’s Minnowboard
Posted in Hardware
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 processor,…
HG2 for Better Graphics in MATLAB
Posted in Software
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 launching…
Python IDEs for science
Posted in Software
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
Posted in Software
Programming that happens in labs is typically rushed and sloppy. The goal is to get the job done right, and, almost as important,…
Make MATLAB text you
Posted in Software
Patrick Mineault covered this back in November in his always interesting xcorr blog.
Using some small code…
Online Scientific Python: Wakari
Posted in Software
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 to…
DIY Superresolution
Posted in Software
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
Posted in Software
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
Posted in Software
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, be…
Nature article on releasing source code
Posted in Software
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 depend…