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GitHub projects

The laboratory for experimental imaging & neuroenergetics, short EIN-lab, is a research group at the University of Zurich in Switzerland. Access our official homepage at

Open-Source Projects


An open-source MATLAB code bundle to extract and analyse characteristics of the compound action potential (CAP).


An open-source MATLAB toolbox designed to analyse functional images of cells and blood vessels, primarily from confocal or two-photon microscopy.


A complete pupillometry toolbox for real-time surveillance of locus coeruleus activity in rodents. Self-assembly and user’s guide.

Privitera M.*, Ferrari K.D.*, von Ziegler L., Sturman O., Duss S.N., Floriou-Servou A., Germain P.-L., Vermeiren Y., Wyss M.T., De Deyn P.P., Weber B.#, Bohacek J.# (2020). A complete pupillometry toolbox for real-time monitoring of locus coeruleus activity in rodents., submitted (* = contributed equally, # = corresponding authors).

Zuend M., Saab A.S., Wyss M.T., Ferrari K.D., Hösli L., Looser Z.J., Stobart J.L., Duran J., Guinovart J.J., Barros L.F., Weber B. (2020). Arousal-induced cortical activity triggers lactate release from astrocytes., Nature Metabolism

Zerbi V., Floriou-Servou A., Markicevic M., Vermeiren Y., Sturman O., Privitera M., von Ziegler L., Ferrari K.D., Weber B., De Deyn P.P., Wenderoth N., Bohacek J. (2019) Rapid Reconfiguration of the Functional Connectome after Chemogenetic Locus Coeruleus Activation., Neuron, vol 103 (4) pp:702-718.e5

Looser Z.J., Barrett M.J.P., Hirrlinger J., Weber B., Saab A.S. (2018). Intravitreal AAV-delivery of genetically encoded sensors enabling simultaneous two-photon imaging and electrophysiology of optic nerve axons., Frontiers of Cellular Neuroscience, vol: 12 pp: 377

Stobart J.L., Ferrari K.D., Barrett M.J.P., Glück C., Stobart M.J., Zuend M., Weber, B. (2018). Cortical Circuit Activity Evokes Rapid Astrocyte Calcium Signals on a Similar Timescale to Neurons. Neuron, vol 98 (4) pp: 726-735

Stobart J.L.*, Ferrari K.D.*, Barrett M.J.P., Stobart M.J. Looser Z.J., Saab A.S., Weber B. (2018). Long-term In Vivo Calcium Imaging of Astrocytes Reveals Distinct Cellular Compartment Responses to Sensory Stimulation. Cerebral Cortex, vol: 28 (1) pp: 184-198 (* = contributed equally).

Barrett M.J.P., Ferrari K.D., Stobart J.L., Holub M., Weber B. (2017). CHIPS: an Extensible Toolbox for Cellular and Hemodynamic Two-Photon Image Analysis. Neuroinformatics, vol: 16 (1) pp: 145-147