University of Heidelberg
BIOQUANT

03/21/2012 Prize for the best scientific paper at BVM 2012

Astha Jaiswal, William J. Godinez, Roland Eils, Maik Lehmann, and Karl Rohr were awarded a prize...


10/03/2011 Best poster award at the Summer School of Masaryk University 2011

Wei Liao was awarded the 1st prize for his poster "A Probabilistic Minimal Path Technique for...


05/31/2011 MIAAB 2011 - Heidelberg

Sixth International Workshop on Microscopic Image Analysis with Applications in Biology

Automated...


11/19/2010 HGS MathComp Best Poster Award 2010

Astha Jaiswal, William Godinez, Maik Lehmann and Karl Rohr were awarded the prize for the best...


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Galaxy Image Analysis

The BMCV Group is developing workflows and tools for web-based analysis of microscopy image data and systematic phenotyping of human cells. We developed Galaxy Image Analysis as extension of the Galaxy platform to address the requirements of microscopy image analysis. Workflows and tools for automated extraction of cellular phenotypes are integrated and deployed by Bioconda. Selected workflows are integrated within ELIXIR services like Galaxy Europe. Tools and workflows are also provided under GitHub. We use Galaxy Image Analysis in different interdisciplinary cooperations. The work is carried out within HD-HuB of the de.NBI project. Below is a list our contributions.

Galaxy Tools (Examples)

Workflows (Examples)

  • RNAi screen analysis
  • Capturing mitoflashes
  • MALDI & HE co-registration
  • Registration of images based on landmarks
  • Registration of images based on intensity information
  • Spot tracking
  • Segmentation

Galaxy Interactive Environments

Bioconda Packages

Conda Forge Packages

Galaxy

  • Image datatypes support
  • Polygon datatypes support
  • Several bugfixes (e.g., UI, scheduling, core)

Galaxy Docker

  • Several bugfixes

Galaxy Docker Imaging Flavour

  • Recipe maintenance
  • Tool selection

Galaxy Jupyter GIE

  • Several bugfixes

Galaxy Ansible

  • Several bugfixes

Bioblend

  • Several bugfixes

Galaxy Training Network

  • Tutorial on basics in Galaxy Image Analysis
  • Tutorial on RNAi screen analysis

usegalaxy.eu

Contact: E-Mail (Last update: 18/03/2024)