Example data setο
In order to follow along with the examples provided in this documentation, you may download the following example data sets from Zenodo:
These example data set is provided to facilitate testing, validation, and demonstration of CellColocβs functionality. It includes a variety of microscopy files in different formats, along with associated metadata and documentation.
The Zenodo record contains two example data sets:
- 3D multichannel microscopy example, consisting of a
three-channel fluorescence microscopy image of hippocampal CA1 tissue. The channels correspond to Cx3cr1-tdTomato, Iba1 immunostaining, and DAPI. The tdTomato channel labels recombined CX3CR1-positive cells, the Iba1 channel labels microglia/macrophage-lineage cells, and the DAPI channel labels cell nuclei and is used for anatomical orientation and quality control.
- DAPI stained nuclei from Rathar (2018), originally published by
Raissa Rathar on Zenodo. This data set contains DAPI-stained nuclei and corresponding TexasRed-stained cells and is included here as additional example image data for testing and demonstration purposes.
Licensing and attributionο
The redistributed Rathar (2018) data set is used under the terms of the Creative Commons Attribution 4.0 International license (CC BY 4.0). Original data set:
Rathar, Raissa. DAPI stained nuclei more or less clustered. Zenodo, Version 1.0.0, 2018. DOI: 10.5281/zenodo.1304211.
When using files from the redistributed Rathar data set, please cite the original Zenodo record in addition to citing CellColoc where appropriate.
The remaining files in the CellColoc example data set were provided as example data for this documentation. Please refer to the Zenodo record for file-level licensing and attribution information.