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 () and tutorial () buttons below.
Lesson Slides Hands-on Recordings Input dataset Workflows
Analyse HeLa fluorescence siRNA screen
HeLa
End-to-End Tissue Microarray Image Analysis with Galaxy-ME
Introduction to Image Analysis using Galaxy
HeLa
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
Tracking of mitochondria and capturing mitoflashes
bioimaging mitoflash mitochondria
FAIR Bioimage Metadata
fair data management bioimaging
REMBI - Recommended Metadata for Biological Images – metadata guidelines for bioimaging data
fair data management bioimaging

Frequently Asked Questions

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Community Resources

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Editorial Board

This material is reviewed by our Editorial Board:

orcid logoThomas Wollmann avatar Thomas Wollmann

Contributors

This material was contributed to by:

orcid logoRiccardo Massei avatar Riccardo Masseiorcid logoJulia Jakiela avatar Julia JakielaLaura Cooper avatar Laura CooperYi Sun avatar Yi Sunorcid logoCameron Watson avatar Cameron Watsonorcid logoAnne Fouilloux avatar Anne Fouillouxorcid logoLeonid Kostrykin avatar Leonid Kostrykinorcid logoKatarzyna Kamieniecka avatar Katarzyna Kamienieckaorcid logoBeatriz Serrano-Solano avatar Beatriz Serrano-Solanoorcid logoThomas Wollmann avatar Thomas WollmannJean-Karim Hériché avatar Jean-Karim Hérichéorcid logoCristóbal Gallardo avatar Cristóbal Gallardoorcid logoBjörn Grüning avatar Björn Grüningorcid logoHelena Rasche avatar Helena Rascheorcid logoKrzysztof Poterlowicz avatar Krzysztof Poterlowiczorcid logoDiana Chiang Jurado avatar Diana Chiang Juradoorcid logoAllison Creason avatar Allison Creasonorcid logoSaskia Hiltemann avatar Saskia Hiltemann

Funding

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

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DFG
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ELIXIR Europe
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NFDI4Bioimage
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DASH UK
This Fellowship was funded through the ELIXIR-UK DaSH project as part of the UKRI Innovation Scholars: Data Science Training in Health and Bioscience call (DaSH). (MR/V038966/1). The project aims to embed Research Data Management (RDM) know-how into UK universities and institutes by producing and delivering training in FAIR data stewardship using ELIXIR-UK knowledge and resources.

References