TY - GEN
T1 - CellTypeGraph
T2 - 2022 IEEE/CVF Conference on Computer Vision and Pattern Recognition, CVPR 2022
AU - Cerrone, Lorenzo
AU - Vijayan, Athul
AU - Mody, Tejasvinee
AU - Schneitz, Kay
AU - Hamprecht, Fred A.
N1 - Publisher Copyright:
© 2022 IEEE.
PY - 2022
Y1 - 2022
N2 - Classifying all cells in an organ is a relevant and difficult problem from plant developmental biology. We here abstract the problem into a new benchmark for node classification in a geo-referenced graph. Solving it requires learning the spatial layout of the organ including symmetries. To allow the convenient testing of new geometrical learning methods, the benchmark of Arabidopsis thaliana ovules is made available as a PyTorch data loader, along with a large number of precomputed features. Finally, we benchmark eight recent graph neural network architectures, finding that DeeperGCN currently works best on this problem.
AB - Classifying all cells in an organ is a relevant and difficult problem from plant developmental biology. We here abstract the problem into a new benchmark for node classification in a geo-referenced graph. Solving it requires learning the spatial layout of the organ including symmetries. To allow the convenient testing of new geometrical learning methods, the benchmark of Arabidopsis thaliana ovules is made available as a PyTorch data loader, along with a large number of precomputed features. Finally, we benchmark eight recent graph neural network architectures, finding that DeeperGCN currently works best on this problem.
KW - Datasets and evaluation
KW - Deep learning architectures and techniques
KW - Machine learning
KW - Medical
KW - Segmentation
KW - biological and cell microscopy
KW - grouping and shape analysis
UR - http://www.scopus.com/inward/record.url?scp=85141814840&partnerID=8YFLogxK
U2 - 10.1109/CVPR52688.2022.02023
DO - 10.1109/CVPR52688.2022.02023
M3 - Conference contribution
AN - SCOPUS:85141814840
T3 - Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition
SP - 20865
EP - 20875
BT - Proceedings - 2022 IEEE/CVF Conference on Computer Vision and Pattern Recognition, CVPR 2022
PB - IEEE Computer Society
Y2 - 19 June 2022 through 24 June 2022
ER -