Nature Communications (Nov 2020)
Introducing Biomedisa as an open-source online platform for biomedical image segmentation
- Philipp D. Lösel,
- Thomas van de Kamp,
- Alejandra Jayme,
- Alexey Ershov,
- Tomáš Faragó,
- Olaf Pichler,
- Nicholas Tan Jerome,
- Narendar Aadepu,
- Sabine Bremer,
- Suren A. Chilingaryan,
- Michael Heethoff,
- Andreas Kopmann,
- Janes Odar,
- Sebastian Schmelzle,
- Marcus Zuber,
- Joachim Wittbrodt,
- Tilo Baumbach,
- Vincent Heuveline
Affiliations
- Philipp D. Lösel
- Engineering Mathematics and Computing Lab (EMCL), Interdisciplinary Center for Scientific Computing (IWR), Heidelberg University
- Thomas van de Kamp
- Institute for Photon Science and Synchrotron Radiation (IPS), Karlsruhe Institute of Technology (KIT)
- Alejandra Jayme
- Engineering Mathematics and Computing Lab (EMCL), Interdisciplinary Center for Scientific Computing (IWR), Heidelberg University
- Alexey Ershov
- Institute for Photon Science and Synchrotron Radiation (IPS), Karlsruhe Institute of Technology (KIT)
- Tomáš Faragó
- Institute for Photon Science and Synchrotron Radiation (IPS), Karlsruhe Institute of Technology (KIT)
- Olaf Pichler
- Engineering Mathematics and Computing Lab (EMCL), Interdisciplinary Center for Scientific Computing (IWR), Heidelberg University
- Nicholas Tan Jerome
- Institute for Data Processing and Electronics (IPE), Karlsruhe Institute of Technology (KIT)
- Narendar Aadepu
- Centre for Organismal Studies Heidelberg (COS), Heidelberg University
- Sabine Bremer
- Institute for Photon Science and Synchrotron Radiation (IPS), Karlsruhe Institute of Technology (KIT)
- Suren A. Chilingaryan
- Institute for Data Processing and Electronics (IPE), Karlsruhe Institute of Technology (KIT)
- Michael Heethoff
- Ecological Networks, Technical University of Darmstadt
- Andreas Kopmann
- Institute for Data Processing and Electronics (IPE), Karlsruhe Institute of Technology (KIT)
- Janes Odar
- Institute for Photon Science and Synchrotron Radiation (IPS), Karlsruhe Institute of Technology (KIT)
- Sebastian Schmelzle
- Ecological Networks, Technical University of Darmstadt
- Marcus Zuber
- Institute for Photon Science and Synchrotron Radiation (IPS), Karlsruhe Institute of Technology (KIT)
- Joachim Wittbrodt
- Centre for Organismal Studies Heidelberg (COS), Heidelberg University
- Tilo Baumbach
- Institute for Photon Science and Synchrotron Radiation (IPS), Karlsruhe Institute of Technology (KIT)
- Vincent Heuveline
- Engineering Mathematics and Computing Lab (EMCL), Interdisciplinary Center for Scientific Computing (IWR), Heidelberg University
- DOI
- https://doi.org/10.1038/s41467-020-19303-w
- Journal volume & issue
-
Vol. 11,
no. 1
pp. 1 – 14
Abstract
Manual segmentation of biological images is a time-consuming task. Here the authors present Biomedisa, an open-source online platform for segmentation of large volumetric images starting from sparsely presegmented slices.
