We use a variety of open-source tools for interacting with animals and brains and analyzing the results.
Software for coordinating the stimulation and recording of diverse streams of neural and behavioral data. The software has been previously developed at Cold Spring Harbor Laboratory, Northwestern University, and Janelia Farm Research Campus, with NIH grant support to Gordon Shepherd and Karel Svoboda.
A github repository of matlab classes and routines used to analyze and package behavior, whisker and physiology data. Originally developed by Dan O’Connor in Karel Svoboda’s lab and extended by the Hires lab.
Software for automated segmentation and tracking of mouse whiskers from high-speed video. GUI interface for manual editing. Cluster-based automation. The best solution for tracking 1-4 whiskers in a single row.