- Developed for: Rachel
- Team: Prochiantz
- Date: September 2023
- Software: Fiji
3D images taken with a x20 objective
2 channels:
- CSU_488: NeuN cells
- CSU_642: CFos cells
- Detect NeuN and CFos cells with Stardist
- Colocalize NeuN and CFos cells
- For each channel, compute background noise as median intensity value of Z projection over min intensity
- For each cell, compute its volume and intensity/background-corrected intensity in each channel in which it appears
- 3DImageSuite Fiji plugin
- Stardist "StandardFluo.zip" model
Version 1 released on September 13, 2023.