We previously describe how we can incorporate DeepLabCut models to run concurrently to Scanbox to provide real-time pose estimation while imaging. Of course, the mechanism for communicating with DeepLabCut is general enough to allow processing by other means. In some simple cases, just as detecting the center of the pupil doing two-photon imaging, simple image…
Read MoreAll articles filed in March 2021
Real-time imaging and pose estimation
I’ve made substantial progress to read real-time DeepLabCut Live date (see paper by Kane et al here) from Scanbox. As you can see in the example below, I got to the point where we can do two-photon imaging and pose estimation in real time. As you recall, the behavior cameras in Scanbox are triggered once…
Read MoreEvent Panel
An updated event panel provides real-time information about TTL events and allows you to provide a name, which is then used to create a matching field in the file metadata. First, this allows for the user to detect if all required events are coming in as expected during the experiment (as opposed to finding out…
Read MoreSuite2p reads Scanbox binaries
Thanks to the work of João Couto, Suite2p now reads *.sbx files. I just processed some of our data and it works nicely. You can download Suite2p from here. Some of the metadata are currently missing, as they are stored in a Matlab’s object that is not easily read in Python, but I will be…
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Scanbox 