To see details about the live Microscopy data analysis: machine learning and the BioImage Archive course and the original programme, you can refer to the course page and programme.

The contents table below outlines the different sessions that were included in the course, as well as the format of the materials (slides/videos/practicals) and each session’s trainer. Either proceed through the materials using the arrows at the end of each page or pick your topic of interest from the table below to skip straight to it.

 Presentation slides –  View or download the slides

 Recorded lectures – Watch the lecture videos 

 Practicals – View or download the slides, exercises, datasets, analysis scripts and results

Format	Subject	Trainer
	Basic concepts in bioimage analysis
	General introduction	Matthew Hartley, and Virginie Uhlmann
	Bioimaging introduction, data formats, and metadata	Jean-Marie Burel and Teresa Zulueta-Coarasa
	Deep learning introduction	Martin Weigert
	Public Bioimaging data resources
	BioImaging data resources at EMBL-EBI – an overview of the BioImage Archive, BioStudies and EMPIAR	Matthew Hartley and Aybuke Kupcu Yoldas
	Image Data Resource (IDR) – introduction	Jean-Marie Burel
	BioImaging data resources at EMBL-EBI – practical	Melina Velasquez and Teresa Zulueta-Coarasa
	Image Data Resource – Practical	Petr Walczysko and Frances Wong
	Open access machine learning resources for bioimage analysis
	Cellpose lecture	Damian Edward Dalle Nogare
	DL4MicEverywhere lecture	Ivan Hidalgo Cenalmor
	CellProfiler lecture	Beth Cimini, Cellprofiler team
	CellProfiler practical	Beth Cimini, Cellprofiler team
	Ilastik lecture	Anna Kreshuk
	Ilastik practical	Dominik Kutra
	Bioimage Model Zoo lecture	Caterina Fuster-Barceló
	Galaxy workflows for image analysis practical	Leonid Kostrykin, Beatriz Serrano-Solano, and Vladimír Ulman
	Advanced topics in bioimage analysis
	Working with public image data in OME-Zarr format	IDR team
	Advanced topics in bioimage analysis	Anna Foix Romero
	Advanced computational topics in the context of bioimage analysis
	pyTorch introduction	Craig Russell
	Advanced topics (Terminal, Snakemake, pyTorch)	Craig Russell
	Distributed/Cloud computing	Jean-Marie Burel and Petr Walczysko