A selection of teaching material on microscopy and bioimage analysis which I have compiled.
Theoretical training course for undergraduate and researchers and core facility staff. Held at BioISI/FCUL.
First edition: October 2021. I intend to make this a yearly training event. Course website.
Assorted ImageJ scripts.
A seminar presented at the online workshop "Optical microscopy at COLife & Friends: learning the basics", from February 4, 2021.
Tutorial: simple quantification of time-dependent organoid growth.
Time lapse tracking practical exercise for the Neubias Training School 2 (Oeiras, 2017).https://github.com/hmbotelho/cellprofiler-practical2-NeuBIAS
Tutorial: Analysis of time lapse microscopy data with CellProfiler, ImageJ and KNIME.
SPAOM 2019 Community Workshop: Bioimage analysis open-source software tools. Contains Jupyter notebook.https://github.com/hmbotelho/SPAOM2019-ws2-bioimage-analysis-oss
2D and 3D image analysis with CellProfiler.
SPAOM 2020 Community Workshop: High-Content Screening.https://github.com/hmbotelho/SPAOM2020-ws1-high-content-screening
Stitching phase contrast microscopy images with the "collection/grid stitching" ImageJ plugin. Spatial calibration with a micrometric ruler.
Plugin website. By Stephan Preibisch.