Tag Archives: technology

Dirigo: a future Python alternative to Scanimage?

Posted on November 14, 2025 by P.T.R. Rupprecht

Over the last 20 years, many microscopes that are capable of resonant scanning two-photon microscopy have converged on using ScanImage, a powerful software package with many strengths but also two downsides: First, it is no longer open-source, and second, it … Continue reading →

Posted in Calcium Imaging, Imaging, Microscopy, neuroscience | Tagged , , , , | Leave a comment

Online spike inference with GCaMP8

Posted on March 24, 2025 by P.T.R. Rupprecht

Calcium imaging is used to record the activity of neurons in living animals. Often, these activity patterns are analyzed after the experiments to investigate how the brain works. Alternatively, it is also possible to extract the activity patterns in real … Continue reading →

Posted in Brain machine interface, Calcium Imaging, closed-loop, Data analysis, electrophysiology, Imaging, machine learning, neuroscience | Tagged , , , , , | Leave a comment

Non-linearity of calcium indicators: history-dependence of spike reporting

Posted on March 14, 2025 by P.T.R. Rupprecht

Calcium indicators are used to report the calcium concentration inside single cells. In neurons, calcium imaging can be used as a readout of neuronal activity (action potentials). However, some calcium indicators like GCaMP transform the calcium concentration of a cell … Continue reading →

Posted in Calcium Imaging, Data analysis, Imaging, machine learning, Microscopy, neuroscience | Tagged , , , , , , | Leave a comment