The 2013 Challenge is turned to an online permanent challenge
Super-resolution microscopy wins the 2014 Nobel Prize
Open software initiative for bioimaging informatics
Benchmarking of SMLM Software
Comprehensive review of the single-molecule localization microscopy (SMLM, PALM, STORM) software packages.
This benchmarking uses common reference datasets
that simulates biological structures and image formation process.
The evaluation of the software packages is performed with well-defined metrics
to get an objective and quantitative assessment. The performance test is mainly done be the developers of the software themselves who participate to a
Open Bio Image Alliance
This localization microscopy challenge goes hand in hand with the Open Bio Image Alliance (OBIA) mission.
This consortium for bioimaging informatics aims at providing high-quality resources to biologists and at
reinforcing the interactions between users and software developers.
to provide biologists and researchers in the life sciences with the highest quality public-domain software resources and a corresponding knowledge base to analyze and quantitate their image data in a sound and reproducible fashion;
to strengthen the interaction between biologists, imaging scientists and developers of bio-image analysis software and algorithms.
OBIA capitalizes on the existence of highly successful software packages such as ImageJ, which have a huge base of users. However, it also faces substantial challenges relating to the long-term support of existing software, its improvement, the quantity and diversity of available macros/plugins, the documentation and organization of the modules, as well as compatibility issues. OBIA will meet these challenges by implementing mechanisms and initiating actions in order to:
facilitate the diffusion of bioimaging software and guide the choice of image analysis tools with special attention to quality (curation), long-term availability and (backward) compatibility;
federate the harmonious community-based development of interoperable software and promote good practices, including the careful validation of tools;
reinforce interactions between imaging scientists/developers and create a sense of community;
be a catalyst for new software development projects, advanced image-analysis initiatives, and interdisciplinary collaborations in the computational and biological sciences.
2nd round10 April 2017
From April 10 to May 10 a second round of the challenge is running. All the DH have be submitted
with the new normalized datasets.
Update of the comprehensive list of SMLM software packages.
45 for localization software and 6 for deconvolution-type reconstruction software.
Conditions of use 27 Sept. 2014
These reference datasets are designed to be largely used by the developpers
to validate theirs software and by the users to check a software. They can be freely
used if the sources and references are properly cited.