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

Common questions regarding this topic have been collected on a dedicated FAQ page . Common questions related to specific tutorials can be accessed from the tutorials themselves.

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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 logoBeatriz Serrano-Solano avatar Beatriz Serrano-Solano orcid logoJulia Jakiela avatar Julia Jakiela orcid logoSaskia Hiltemann avatar Saskia Hiltemann orcid logoAnne Fouilloux avatar Anne Fouilloux orcid logoRiccardo Massei avatar Riccardo Massei orcid logoThomas Wollmann avatar Thomas Wollmann Laura Cooper avatar Laura Cooper orcid logoKatarzyna Kamieniecka avatar Katarzyna Kamieniecka orcid logoAllison Creason avatar Allison Creason orcid logoCristóbal Gallardo avatar Cristóbal Gallardo Yi Sun avatar Yi Sun Jean-Karim Hériché avatar Jean-Karim Hériché orcid logoKrzysztof Poterlowicz avatar Krzysztof Poterlowicz orcid logoCameron Watson avatar Cameron Watson orcid logoBjörn Grüning avatar Björn Grüning orcid logoDiana Chiang Jurado avatar Diana Chiang Jurado orcid logoHelena Rasche avatar Helena Rasche orcid logoLeonid Kostrykin avatar Leonid Kostrykin

Funding

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

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ELIXIR Europe
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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.
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NFDI4BIOIMAGE

References