pyview_test_data

Collection of Datasets for testing PyVIEW

This repository contains datasets for testing pyview (https://github.com/galizia-lab/pyview).

For more information please consult: About pyVIEW, Getting Started, Unit-Testing

Reference Publication: Kumaraswamy A., Raiser G., Galizia C. G. (2022). PyView: A general purpose tool for analyzing calcium imaging data. Journal of Open Source Software, ....., <DOI>

Acknowledgements

We would like to thank Dr. Ana Silberling, Dr. Hanna Schnell, Dr. Inga Petelski, Dr. Latha Mukunda, Marylin Roswell, Dr. Marco Stucchi, Dr. Sercan Sayin, Dr. Alja Luedke, Martin Giurfa, Marco Paoli, Maria Gabriela de Brito Sanchez, Xi Chu and Dr. Elena Ian for allowing us to use examples of data acquired by them here.

Funded by the Federal Ministry of Education and Research (BMBF) and the Baden-Württemberg Ministry of Science as part of the Excellence Strategy of the German Federal and State Governments.

Licensing

"Collection of Datasets for testing PyVIEW" by Galizia Lab, University of Konstanz, Germany; Bente Berg Lab, NTNU, Trondheim, Norway; Martin Giurfa Lab, Toulouse, France is licensed under Creative Commons Attribution 4.0 International License (https://creativecommons.org/licenses/by/4.0/).

Updates

Updated versions of "Collection of Datasets for testing PyVIEW", if any, will be available here: https://gin.g-node.org/ag_galizia/pyview_test_data.

Description of Contents

Each folder contains a dataset and has the subfolder structure as described here. A brief description of the datasets follows.

Folder Name	Experimenter	Lab	Setup	Description	LE_loadExp	LE_CalcMethod
FakeData	Giovanni Galizia	Galizia Lab, University of Konstanz, Germany	-	Artificial data simulating single wavelength calcium imaging with pixel shot noise and movement artifacts. Used only for testing	666	3
FakeData_tiny	Giovanni Galizia	Galizia Lab, University of Konstanz, Germany	-	Simulated data as in FakeData above, but smaller (50x50x50). Used only for testing.	676	3
AS_Till_2004	Ana Silberling	Galizia Lab, University of Konstanz, Germany	Till Photonics	Calcium measurements in the Drosophila Antennal Lobe using GCamp. Short measurements, single wavelength.	3	3
HS_Till	Hanna Schnell	Galizia Lab, University of Konstanz, Germany	Till Photonics	Calcium measurements in the Honeybee Antennal Lobe using GCamp. Short measurements, single wavelength.	3	3
IP_Fura	Inga Petelski	Galizia Lab, University of Konstanz, Germany	Till Photonics	Calcium measurements in the Locust Antennal Lobe using Fura. Short measurements, dual wavelength.	4	4
LM_Till_only_FID	Latha Mukunda	Galizia Lab, University of Konstanz, Germany	Till Photonics	Calcium measurements in the Drosophila Antenna using GCamp. Long measurements, single wavelength.	3	3
MR_Till	Marylin Roswell	Galizia Lab, University of Konstanz, Germany	Till Photonics	Calcium measurements in the Drosophila Antenna using GCamp. Long measurements, single wavelength.	3	3
MS_LSM	Marco Stucchi	Galizia Lab, University of Konstanz, Germany	Zeiss LSM510	Calcium measurements in the Drosophila Mushroom Body using GCamp. Very Long measurements, single wavelength.	20	3
SS_LSM	Sercan Sayin	Galizia Lab, University of Konstanz, Germany	Zeiss LSM510	Calcium measurements in the Locust Antennal lobe using Oregon green. Short measurements, single wavelength.	20	3
SS_LSM_Pixel_Calibration	Sercan Sayin	Galizia Lab, University of Konstanz, Germany	Zeiss LSM510	Calibration measurements using a very small scale. Short measurements, single wavelength.	20	3
Or47a_test	Alja Luedke, Marylin Rowswell, Paavan Gouniyal	Galizia Lab, University of Konstanz, Germany	Till Photonics	Calcium measurements in the Drosophila Antenna using GCamp. Long measurements, single wavelength.	3	3
Bente_test	Elena Ian	Bente Lab, NTNU, Trondheim, Norway	epifluorescent microscope (Olympus BX51WI) equipped with a 20x (NA 1.00) water immersion objective (Olympus XLUMPlanFLN)	Calcium measurements in the moth antennal lobe using fura-2 dextran dye (10,000 MW, in 2% BSA; Molecular Probes). Short measurements, dual wavelength.	34	4
MP_LIF	Marco Paoli	Martin Giurfa Lab, Toulouse, France	Leica 2-Photon Microscope, LIF format	Calcium measurements in a bee antennal lobe using fura-2 dextran dye (10,000 MW, in 2% BSA; Molecular Probes). Single wavelength.	21	3