Image Analysis
- Lecture BioImage Analysis 2020 by Robert Haase at Max Planck Institute of Molecular Cell Biology and Genetics (MPI-CBG)
- Introduction to bio-image analysis with Fiji, images, pixels, measurements
- Filters + Image segmentation (using Fiji in Part 2)
- Feature extraction
- Introduction to ImageJ macro programming: Variables and operations
- ImageJ macro programming: ROIs and Overlays
- ImageJ macro programming: Functions, Arrays, Plots and Tables
- ImageJ macro programming: User Interfaces
- Writing good code
- NEUBIAS Academy
- A series of online events targeting Bioimage Analysis Technology
- [Archives] https://www.youtube.com/channel/UC-oy7UpEhRfHQ-5ePCviKFg
- IAFIG-RMS Python for Bioimage Analysis Course (2019)
- Fiji/ImageJ
- ImageJ/Fiji Macro Language https://www.youtube.com/watch?v=o8tfkdcd3DA
- Annotation
- Quantitative Pathology & BioImage Analysis: QuPath https://www.youtube.com/watch?v=4An5n6Y_rRI
- Python for Microscopists by Sreeni
Visualization
- Plotting anything with ggplot2 (Part 1) by Thomas Lin Pedersen at RStudio (2020)
- The underlying theory of ggplot2 and how it is reflected in the API
- Part 1: https://www.youtube.com/watch?v=h29g21z0a68
- Part 2: https://www.youtube.com/watch?v=0m4yywqNPVY
- Introducing patchwork, gganimate, ggrepel, ggforce, ggraph, tidygraph, hrbrthemes, ggthemes packages
- [Materials] https://github.com/thomasp85/ggplot2_workshop
Microscopy
- Microcourses
- Microcourses are short educational videos on a variety of light microscopy topics, brought to you by a team of microscopists from Harvard Medical School.
- https://www.youtube.com/channel/UC4cOKa0TZK8CQhzSQqfwuMQ
Machine Learning
- Interactive Tools for ML, DL and Math
Misc.
- The Missing Semester of Your CS EducationThe Missing Semester of Your CS Education
- The shell, Shell Tools and Scripting, Editors (Vim), Data Wrangling, Command-line Environment, Version Control (Git), Debugging and Profiling, Metaprogramming, Security and Cryptography, and Potpourri
- https://missing.csail.mit.edu
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