Data Visualization and Image Export
Channel: Zbigniew Mikulski
Date: 12/11/2023

Data Visualization and Export by Zbigniew Mikulski demonstrates how to adjust brightfield and fluorescence images for optimal viewing and how to export figures for scientific presentations.

Files https://drive.google.com/drive/folders/1T9g4ex3TFVVCkZ7PdPl9w_61ySakUndI and a related presentation https://docs.google.com/presentation/d/1nOX6VcTkGGuho1g-HTnRRnKgddVelYX5 are available for download.  

0:00 Viewing image channels in QuPath by Zbigniew Mikulski
2:20 Image bits, dynamic range, saturation, LUTs
5:37 Adjusting visualization
9:58 Making quick snapshots
12:11 Exporting to ImageJ for better scale bars
14:56 Discussion on DPI and printing
17:38 Preparing for final publication
23:31 Reporting and reproducibility
24:58 Fluorescence Look Up Table adjustment
29:12 Multiviewer
31:50 Color perception and being color-blind friendly
33:09 Psuedo-HE and Psuedo-DAB
34:13 Adjusting Channel Names
35:34 Saving channel sets for multiplex viewing

If you have any questions about the videos or the training course, please ask on this image.sc forum post. https://forum.image.sc/t/qupath-training-course-from-samples-to-knowledge-2023-is-available-online/88618
The more information you can include about your question, the more helpful our answers can be.  

Please follow this document to get everything you need (software, files, cheat sheets, and additional resources):
https://docs.google.com/document/d/1VyPtSbvnUC3EWnCVSRmFgFnhsXNHfOkAxOVyhkpYn8I