Imaging

Image analysis using Galaxy

Requirements

Before diving into this topic, we recommend you to have a look at:

Material

You can view the tutorial materials in different languages by clicking the dropdown icon next to the slides (slides) and tutorial (tutorial) buttons below.
Lesson Slides Hands-on Recordings Input dataset Workflows
Analyse HeLa fluorescence siRNA screen
End-to-End Tissue Microarray Image Analysis with Galaxy-ME
Introduction to Image Analysis using Galaxy
Nucleoli segmentation and feature extraction using CellProfiler
Object tracking using CellProfiler
Overview of the Galaxy OMERO-suite - Upload images and metadata in OMERO using Galaxy
Parameter tuning and optimization - Evaluating nuclei segmentation with Galaxy
Quantification of single-molecule RNA fluorescence in situ hybridization (smFISH) in yeast cell lines
Tracking of mitochondria and capturing mitoflashes
Using BioImage.IO models for image analysis in Galaxy
Voronoi segmentation
FAIR Bioimage Metadata
REMBI - Recommended Metadata for Biological Images – metadata guidelines for bioimaging data

Frequently Asked Questions

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Editorial Board

This material is reviewed by our Editorial Board:

orcid logoLeonid Kostrykin avatar Leonid Kostrykinorcid logoBeatriz Serrano-Solano avatar Beatriz Serrano-Solano

Contributors

This material was contributed to by:

orcid logoEven Moa Myklebust avatar Even Moa Myklebustorcid logoLeonid Kostrykin avatar Leonid Kostrykinorcid logoThomas Wollmann avatar Thomas WollmannYi Sun avatar Yi Sunorcid logoCameron Watson avatar Cameron Watsonorcid logoJulia Jakiela avatar Julia Jakielaorcid logoDiana Chiang Jurado avatar Diana Chiang JuradoAnup Kumar avatar Anup Kumarorcid logoMartin Čech avatar Martin Čechorcid logoBjörn Grüning avatar Björn Grüningorcid logoBeatriz Serrano-Solano avatar Beatriz Serrano-Solanoorcid logoArmin Dadras avatar Armin Dadrasorcid logoAllison Creason avatar Allison Creasonorcid logoCristóbal Gallardo avatar Cristóbal GallardoJean-Karim Hériché avatar Jean-Karim Hérichéorcid logoRiccardo Massei avatar Riccardo Masseiorcid logoHelena Rasche avatar Helena Rascheorcid logoSaskia Hiltemann avatar Saskia Hiltemannorcid logoKrzysztof Poterlowicz avatar Krzysztof PoterlowiczLaura Cooper avatar Laura Cooperorcid logoKatarzyna Kamieniecka avatar Katarzyna Kamienieckaorcid logoAnne Fouilloux avatar Anne Fouilloux

Funding

These individuals or organisations provided funding support for the development of this resource

References