Tag: data acquisition

Using NI DAQmx in MATLAB

This post is from Rob Campbell: As part of TENSS [editor’s note: this course is run by great people– highly recommended] we have created a set of examples showing how to use DAQmx in MATLAB without the Data Acquisition Toolbox. This is achieved using Vidrio’s free wrapper, which exposes almost all of the DAQmx API



Tibbo Project System – modular microcontroller

Tibbo makes modular microcontrollers, with plug-in modules for I/O ports (e.g. DB9), relays, sensors, digitizers, etc. They have different sizes, the largest of which is available as a Linux version.



Open Ephys’ Cyclops LED driver

We covered Open Ephys back in 2013. They have well-developed devices for extracellular electrophysiology, and have some work on intracellular electrophysiology as well. Check out the Cyclops LED driver too. It continues to be an active community as evidenced by their wiki and forum.



Constrained non-negative matrix factorization for calcium imaging data analysis

I tweeted about this last fall. This is the best algorithm I’ve seen for segmenting and extracting time course from calcium imaging data. Eftychios Pnevmatikakis developed the code in Liam Paninski’s lab. The work is reported in a pair of papers in Neuron, and the code is freely available (links below). The source separation works



CANDLE-J for denoising 2p data

Collaborative Approach for eNhanced Denoising under Low-light Excitation, or CANDLE, is a denoising algorithm specialized for the type of images that are acquired in 2-photon imaging applications. There’s code for both ImageJ and MATLAB available at that link. Here’s a write up on it. The raw images are on the left, and the denoised (via



PackIO for NI devices

Adam Packer wrote some LabVIEW software for acquiring and generating data from National Instruments cards called PackIO. It is meant to trigger and synchronize equipment as well as record any data, with a few specific modules for electrophysiology. The nice thing is that you can do just about everything in a hardware-timed fashion, so you’re