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Semi-supervised sequence modeling for improved behavioral segmentation

View ORCID ProfileMatthew R Whiteway, View ORCID ProfileEvan S Schaffer, Anqi Wu, View ORCID ProfileE Kelly Buchanan, Omer F Onder, View ORCID ProfileNeeli Mishra, Liam Paninski
doi: https://doi.org/10.1101/2021.06.16.448685
Matthew R Whiteway
Columbia University, New York, USA
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  • For correspondence: m.whiteway@columbia.edu
Evan S Schaffer
Columbia University, New York, USA
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Anqi Wu
Columbia University, New York, USA
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E Kelly Buchanan
Columbia University, New York, USA
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Omer F Onder
Columbia University, New York, USA
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Neeli Mishra
Columbia University, New York, USA
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Liam Paninski
Columbia University, New York, USA
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Abstract

A popular approach to quantifying animal behavior from video data is through discrete behavioral segmentation, wherein video frames are labeled as containing one or more behavior classes such as walking or grooming. Sequence models learn to map behavioral features extracted from video frames to discrete behaviors, and both supervised and unsupervised methods are common. However, each approach has its drawbacks: supervised models require a time-consuming annotation step where humans must hand label the desired behaviors; unsupervised models may fail to accurately segment particular behaviors of interest. We introduce a semi-supervised approach that addresses these challenges by constructing a sequence model loss function with (1) a standard supervised loss that classifies a sparse set of hand labels; (2) a weakly supervised loss that classifies a set of easy-to-compute heuristic labels; and (3) a self-supervised loss that predicts the evolution of the behavioral features. With this approach, we show that a large number of unlabeled frames can improve supervised segmentation in the regime of sparse hand labels and also show that a small number of hand labeled frames can increase the precision of unsupervised segmentation.

Competing Interest Statement

The authors have declared no competing interest.

Footnotes

  • * An abbreviated version of this work is to appear at the CVPR 2021 CV4Animals Workshop.

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Posted June 17, 2021.
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Semi-supervised sequence modeling for improved behavioral segmentation
Matthew R Whiteway, Evan S Schaffer, Anqi Wu, E Kelly Buchanan, Omer F Onder, Neeli Mishra, Liam Paninski
bioRxiv 2021.06.16.448685; doi: https://doi.org/10.1101/2021.06.16.448685
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Semi-supervised sequence modeling for improved behavioral segmentation
Matthew R Whiteway, Evan S Schaffer, Anqi Wu, E Kelly Buchanan, Omer F Onder, Neeli Mishra, Liam Paninski
bioRxiv 2021.06.16.448685; doi: https://doi.org/10.1101/2021.06.16.448685

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