Software

NeuroAnsible is a software installation system to take an Ubuntu LTS desktop and turn it into a Neuroimaging workstation. NeuroAnsible installs software in a module system similar to those available on large HPCs, aiming to be minimally invasive to the underlying system.

Zapit is a general purpose package for coordinating galvo-based optostimulation in head-fixed mice. It is a software and hardware solution with an emphasis on flexibility and ease of use. The software will run on a variety of hardware designs and experimental paradigms.

Movement is a a Python toolbox for analysing body movements across space and time, to aid the study of animal behaviour in neuroscience. Pose estimation tools, such as DeepLabCut and SLEAP are now commonplace when processing video data of animal behaviour.

BCIWiki is a collection of links and resources related to computers that interface with the nervous system. The long-term goals for this project are to make it simple for anyone to understand the capabilities and limitations of Brain-Computer Interface (BCI) technologies, and to make informed hypotheses about their potential uses.

Bpod is an open-source platform for real-time behavioral measurement in multi-trial experiments. With control software in MATLAB and device firmware in Arduino, it is designed to be customized with the software talent in a typical academic Neuroscience lab.

NeuroMatic is a collection of WaveMetrics Igor Pro software tools for acquiring, analyzing and simulating electrophysiological data. By merging a wide range of tools into a single package, NeuroMatic facilitates a more integrated style of research.

NeuroShortcut is a brain-computer interface tool for triggering keyboard shortcuts, system commands, and macro scripts by changing mental states. The application uses the Brainflow library to stream live band power data to an interface where a user can then save a threshold value for triggering events on their computer.

iElectrodes is an open-source Matlab toolbox to localize intracranial electrodes from MRI and CT images. Atlas and brain surfaces can be easily loaded for anatomical labeling. The toolbox is capable of working with ECoG (subdural grids and strips) and SEEG (depth) electrodes.

DataJoint Elements is a growing compilation of community-curated, open-source software modules for building automated data pipelines and analysis workflows for neuroscience experiments. DataJoint Elements enables: Secure tracking of animal subjects, equipment, and procedures Automatic data ingestion Customized research workflows Faster deployment Improved reproducibility Greater continuity across projects Secure tracking.

Video capture is increasingly necessary for neuroscience research where neural and behavioral data are synchronized to reveal correlative and causal relationships. This relies on a recording system that can capture quality videos without significant alterations to preexisting experimental conditions (e.