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Shantanu Singh, Jane Hung, Juan Caicedo, Mohammad Rohban

How to make a picture worth a thousand numbers: models and methods in biological image analysis

Our group (Carpenter lab / Imaging Platform) develops  â€“ a widely-used bioimage analysis software, and has pioneered image-based profiling – an approach to create signatures of cell populations using high-throughput microscopy imaging. In this talk, we will present approaches we've been developing to create a new generation of these tools and methods. This talk will include four quick vignettes:
- A deep learning-based tool and  for cell detection, applied to nucleus detection and malaria stage classification.
- An extensive evaluation of two convnet models for nucleus segmentation, as well as a sneak peak into the results of the 2018 Kaggle Data Science Bowl challenge we organized.
- A  for creating morphological profiles by training convnets using weak labels.
- A new approach for creating cell population profiles which capture single-cell heterogeneity.