Deliverables
All project management procedures are established and the Executive Board is assembled
Annotation standards and software, libraries and reference examplesA public release through GitHub or a similar source code hosting site of the format description together with software to use and convert the formats and links to reference examples hosted in the BIA
Risk Management PlanA plan on how to monitor and manage risks exists and is made accessible
First stable BioImage Zoo Model format + software tools, libraries and reference examples.Public release of the format specification for the BMZ model format together with example code and links to reference examples in the BMZ
Data Management PlanThe data management plan will be worked out and made accessible.
Strategy for dissemination of information within the consortiumDissemination strategy within the consortium is established and agreed upon
The cloud infrastructure is set up as described in Task 22
Notebooks and algorithms repository (accessible from the AI4LIFE website)Notebooks to trainexecute models and supporting functionality eg for data handling will be available via a searchable repository on the AI4LIFE website Users can browse and launch them enabling them to apply any available method to their own data
Terms of serviceRelease of terms of service for users and contributors
Publications
Author(s):
Kemmer, Isabel; Keppler, Antje; Serrano-Solano, Beatriz; Rybina, Arina; Özdemir, Bugra; Bischof, Johanna; El Ghadraoui, Ayoub; Eriksson, John E.; Mathur, Aastha
Published in:
2023
Publisher:
Zenodo
DOI:
10.5281/zenodo.7788899
Author(s):
Workshop participants
Published in:
zenodo.org, 2023
Publisher:
Zenodo
DOI:
10.5281/zenodo.7681686
Author(s):
Serrano-Solano, Beatriz
Published in:
2023
Publisher:
Zenodo
DOI:
10.5281/zenodo.7785759
Author(s):
Henriques, Ricardo; Gómez de Mariscal, Estibaliz; Hidalgo, Iván
Published in:
2023
Publisher:
Zenodo
DOI:
10.5281/zenodo.7987775
Author(s):
Kreshuk, Anna; Hartley, Matthew
Published in:
2023
Publisher:
Zenodo
DOI:
10.5281/zenodo.7785654
Author(s):
Fuster Barcelo, Caterina; Muñoz-Barrutia, Arrate
Published in:
2023
Publisher:
Zenodo
DOI:
10.5281/zenodo.7785511
Author(s):
Robinson-Lehtinen, Rachel
Published in:
2023
Publisher:
Zenodo
DOI:
10.5281/zenodo.7786437
Author(s):
Robinson-Lehtinen, Rachel
Published in:
2023
Publisher:
Zenodo
DOI:
10.5281/zenodo.7786366
Author(s):
Robinson-Lehtinen, Rachel
Published in:
2023
Publisher:
Zenodo
DOI:
10.5281/zenodo.7785849
Author(s):
Ouyang, Wei; Hartley, Matthew
Published in:
zenodo.org, 2023
Publisher:
Zenodo
DOI:
10.5281/zenodo.8296448
Author(s):
Wei Ouyang, Fynn Beuttenmueller, Estibaliz Gómez-de-Mariscal, Constantin Pape, Tom Burke, Carlos Garcia-López-de-Haro, Craig Russell, Lucía Moya-Sans, Cristina de-la-Torre-Gutiérrez, Deborah Schmidt, Dominik Kutra, Maksim Novikov, Martin Weigert, Uwe Schm
Published in:
bioRxiv.org, 2022
Publisher:
bioRxiv
DOI:
10.1101/2022.06.07.495102v1
Author(s):
Caterina Fuster-Barceló,
Published in:
Focal Plane, 2023
Publisher:
FocalPlane
Author(s):
Bruno M. Saraiva, Inês M. Cunha, António D. Brito, Gautier Follain, Raquel Portela, Robert Haase, Pedro M. Pereira, Guillaume Jacquemet, Ricardo Henriques
Published in:
bioRxiv.org, 2023
Publisher:
bioRxiv
DOI:
10.1101/2023.08.13.553080
Author(s):
Giovanni Volpe, Carolina Wählby, Lei Tian, et al.
Published in:
arxiv.org, 2023
Publisher:
Arxiv
DOI:
10.48550/arXiv.2303.03793
Author(s):
Hartley, Matthew; Zulueta-Coarasa, Teresa
Published in:
zenodo.org, 2023
Publisher:
Zenodo
DOI:
10.5281/zenodo.8296393
Author(s):
Ouyang, Wei
Published in:
Zenodo, 2023
Publisher:
Zenodo
DOI:
10.5281/zenodo.8380089
Author(s):
Schmied, Christopher; Nelson, Michael; Avilov, Sergiy; Bakker, Gert-Jan; Bertocchi, Cristina; Bischof, Johanna; Boehm, Ulrike; Brocher, Jan; Carvalho, Mariana; Chiritescu, Catalin; Christopher, Jana; Cimini, Beth; Conde-Sousa, Eduardo; Ebner, Michael; Ecker, Rupert; Eliceiri, Kevin; Fernandez-Rodriguez, Julia; Gaudreault, Nathalie; Gelman, Laurent; Grunwald, David; Gu, Tingting; Halidi, Nadia; Hammer, Mathias; Hartley, Matthew; Held, Marie; Jug, Florian; Kapoor, Varun; Koksoy, Ayse Aslihan; Lacoste, Judith; Dévédec, Sylvia Le; Guyader, Sylvie Le; Liu, Penghuan; Martins, Gabriel; Mathur, Aastha; Miura, Kota; Llopis, Paula Montero; Nitschke, Roland; North, Alison; Parslow, Adam; Payne-Dwyer, Alex; Plantard, Laure; Rizwan, Ali; Schroth-Diez, Britta; Schütz, Lucas; Scott, Ryan T.; Seitz, Arne; Selchow, Olaf; Sharma, Ved; Spitaler, Martin; Srinivasan, Sathya; De Castillia, Caterina Strambio; Taatjes, Douglas; Tischer, Christian; Jambor, Helena Klara
Published in:
CORNELL UNIVERSITY, 2023
Publisher:
Arxiv
DOI:
10.48550/arXiv.2302.07005
Author(s):
Wei Ouyang; Kevin W. Eliceiri; Beth A. Cimini
Published in:
Frontiers in Bioinformatics, 2023, ISSN 2673-7647
Publisher:
Frontiers
DOI:
10.3389/fbinf.2023.1233748
Author(s):
Estibaliz Gómez-de-Mariscal, Mario Del Rosario, Joanna W Pylvänäinen, Guillaume Jacquemet, Ricardo Henriques
Published in:
arxiv.org, 2023
Publisher:
Arxiv
DOI:
10.48550/arXiv.2308.04387
Author(s):
Carlos Garcia Lopez de Haro, Stephane Dallongeville, Thomas Musset, Estibaliz Gomez de Mariscal, Daniel Sage, Wei Ouyang, Arrate Munoz-Barrutia, Jean-Yves Tinevez, Jean-Christophe Olivo-Marin
Published in:
arxiv.org, 2023
Publisher:
Arxiv
DOI:
10.48550/arXiv.2306.04796
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