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
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 logoJulia Jakiela avatar Julia Jakielaorcid logoAllison Creason avatar Allison Creasonorcid logoKrzysztof Poterlowicz avatar Krzysztof Poterlowiczorcid logoSaskia Hiltemann avatar Saskia Hiltemannorcid logoBeatriz Serrano-Solano avatar Beatriz Serrano-SolanoLaura Cooper avatar Laura Cooperorcid logoThomas Wollmann avatar Thomas Wollmannorcid logoCameron Watson avatar Cameron Watsonorcid logoCristóbal Gallardo avatar Cristóbal Gallardoorcid logoBjörn Grüning avatar Björn Grüningorcid logoAnne Fouilloux avatar Anne FouillouxJean-Karim Hériché avatar Jean-Karim Hérichéorcid logoMartin Čech avatar Martin Čechorcid logoHelena Rasche avatar Helena Rascheorcid logoDiana Chiang Jurado avatar Diana Chiang Juradoorcid logoArmin Dadras avatar Armin Dadrasorcid logoKatarzyna Kamieniecka avatar Katarzyna Kamienieckaorcid logoRiccardo Massei avatar Riccardo MasseiAnup Kumar avatar Anup KumarYi Sun avatar Yi Sunorcid logoLeonid Kostrykin avatar Leonid Kostrykin

Funding

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

References