# 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](https://github.com/galizia-lab/pyview/wiki), [Getting Started](https://github.com/galizia-lab/pyview/wiki/Getting-Started), [Unit-Testing](https://github.com/galizia-lab/pyview/wiki/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](https://github.com/galizia-lab/pyview/wiki/Recommended-folder-structure). 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|