The DOI matches its Crossref record; 3 of the 3 references it cites were found in a registry or an index.
Collaborative analysis of multi-gigapixel imaging data using Cytomine
Open accessAbstract
Motivation: Collaborative analysis of massive imaging datasets is essential to enable scientific discoveries. Results: We developed Cytomine to foster active and distributed collaboration of multidisciplinary teams for large-scale image-based studies. It uses web development methodologies and machine learning in order to readily organize, explore, share and analyze (semantically and quantitatively) multi-gigapixel imaging data over the internet. We illustrate how it has been used in several biomedical applications. Availability and implementation: Cytomine (http://www.cytomine.be/) is freely available under an open-source license from http://github.com/cytomine/. A documentation wiki (http://doc.cytomine.be) and a demo server (http://demo.cytomine.be) are also available. Contact: info@cytomine.be Supplementary information: Supplementary data are available at Bioinformatics online.
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Fiji: an open-source platform for biological-image analysis
Schindelin, J., Arganda-Carreras, I., Frise, E., Kaynig, V., Longair, M., Pietzsch, T., Preibisch, S., Rueden, C., Saalfeld, S., Schmid, B., et al. (2012) · Nature Methods · doi:10.1038/nmeth.2019 · Cited by 66,890
Quantitative neuroanatomy for connectomics in Drosophila
Schneider-Mizell, C. M., Gerhard, S., Longair, M., Kazimiers, T., Li, F., Zwart, M. F., Champion, A., Midgley, F. M., Fetter, R. D., Saalfeld, S., et al. (2016) · eLife · doi:10.7554/elife.12059 · Cited by 332
Wang, C.-W., Huang, C.-T., Hsieh, M.-C., Li, C.-H., Chang, S.-W., Li, W.-C., Vandaele, R., Maree, R., Jodogne, S., Geurts, P., et al. (2015) · IEEE Transactions on Medical Imaging · doi:10.1109/tmi.2015.2412951 · Cited by 235
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Cited by
QuPath: Open source software for digital pathology image analysis
Bankhead, P., Loughrey, M. B., Fernández, J. A., Dombrowski, Y., McArt, D. G., Dunne, P. D., McQuaid, S., Gray, R. T., Murray, L. J., Coleman, H. G., et al. (2017) · Scientific Reports · doi:10.1038/s41598-017-17204-5 · Cited by 8,908
ilastik: interactive machine learning for (bio)image analysis
Berg, S., Kutra, D., Kroeger, T., Straehle, C. N., Kausler, B. X., Haubold, C., Schiegg, M., Ales, J., Beier, T., Rudy, M., et al. (2019) · Nature Methods · doi:10.1038/s41592-019-0582-9 · Cited by 3,368
Trainable Weka Segmentation: a machine learning tool for microscopy pixel classification
Arganda-Carreras, I., Kaynig, V., Rueden, C., Eliceiri, K. W., Schindelin, J., Cardona, A., & Sebastian Seung, H. (2017) · Bioinformatics · doi:10.1093/bioinformatics/btx180 · Cited by 2,424
Machine Learning Methods for Histopathological Image Analysis
Komura, D., & Ishikawa, S. (2018) · Computational and Structural Biotechnology Journal · doi:10.1016/j.csbj.2018.01.001 · Cited by 937
The Orthanc Ecosystem for Medical Imaging
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Metadata
- Authors
- Marée, R., Rollus, L., Stévens, B., Hoyoux, R., Louppe, G., Vandaele, R., Begon, J.-M., Kainz, P., Geurts, P., & Wehenkel, L.
- Venue
- Bioinformatics
- Publisher
- Oxford University Press (OUP)
- Published
- 2016-01-10
- Volume
- 32
- Issue
- 9
- Pages
- 1395-1401
- ISSN
- 1367-4803 (ISSN-L)
- 1367-4811
- OpenAlex
- W2234666690
- Cited by
- 196
- References
- 3
- FWCI
- 10.08
- Type
- journal article
- Language
- en
- Open access
- hybrid
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- Marée, R., Rollus, L., Stévens, B., Hoyoux, R., Louppe, G., Vandaele, R., Begon, J.-M., Kainz, P., Geurts, P., & Wehenkel, L. (2016). Collaborative analysis of multi-gigapixel imaging data using Cytomine. Bioinformatics. https://doi.org/10.1093/bioinformatics/btw013
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