Abstract
Shortage of annotated data is one of the greatest bottlenecks in biomedical image analysis. Meta learning studies how learning systems can increase in efficiency through experience and could thus evolve as an important concept to overcome data sparsity. However, the core capability of meta learning-based approaches is the identification of similar previous tasks given a new task - a challenge largely unexplored in the biomedical imaging domain. In this paper, we address the problem of quantifying task similarity with a concept that we refer to as task fingerprinting. The concept involves converting a given task, represented by imaging data and corresponding labels, to a fixed-length vector representation. In fingerprint space, different tasks can be directly compared irrespective of their data set sizes, types of labels or specific resolutions. An initial feasibility study in the field of surgical data science (SDS) with 26 classification tasks from various medical and non-medical domains suggests that task fingerprinting could be leveraged for both (1) selecting appropriate data sets for pretraining and (2) selecting appropriate architectures for a new task. Task fingerprinting could thus become an important tool for meta learning in SDS and other fields of biomedical image analysis.
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Notes
- 1.
We use the SciPy [42] implementation of the Wasserstein distance.
- 2.
We used the implementations from [43] and the models CSPNet (cspdarknet53, cspresnext50), ECA-Net (ecaresnet50d), EfficientNet (tf_efficientnet_b2_ns), DPN (dpn68b), MixNet (mixnet_xl), RegNetY (regnety_032), ResNeXt (swsl_resnext50_32x4d), ReXNet (rexnet_200), VovNet2 (ese_vovnet39b) and Xception (xception). Please refer to the documentation of [43] for full references of these.
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Acknowledgements
We would like to thank our colleagues Minu Dietlinde Tizabi, Tim Adler, Thuy Nuong Tran, Tobias Ross and Lucas-Raphael Müller for their valuable feedback on the drafts of this work. This project has been funded by the Surgical Oncology Program of the National Center for Tumor Diseases (NCT) Heidelberg. The present contribution is also supported by the Helmholtz Imaging Platform (HIP), a platform of the Helmholtz Incubator on Information and Data Science.
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Godau, P., Maier-Hein, L. (2021). Task Fingerprinting for Meta Learning inBiomedical Image Analysis. In: de Bruijne, M., et al. Medical Image Computing and Computer Assisted Intervention – MICCAI 2021. MICCAI 2021. Lecture Notes in Computer Science(), vol 12904. Springer, Cham. https://doi.org/10.1007/978-3-030-87202-1_42
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