Transfer learning has become a popular method for leveraging pre-trained models in computer vision. However, without performing computationally expensive fine-tuning, it is difficult to quantify which pre-trained source models are suitable for a specific target task, or, conversely, to which tasks a pre-trained source model can be easily adapted to. In this work, we propose Gaussian Bhattacharyya Coefficient (GBC), a novel method for quantifying transferability between a source model and a target dataset. In a first step we embed all target images in the feature space defined by the source model, and represent them with per-class Gaussians. Then, we estimate their pairwise class separability using the Bhattacharyya coefficient, yielding a simple and effective measure of how well the source model transfers to the target task. We evaluate GBC on image classification tasks in the context of dataset and architecture selection. Further, we also perform experiments on the more complex semantic segmentation transferability estimation task. We demonstrate that GBC outperforms state-of-the-art transferability metrics on most evaluation criteria in the semantic segmentation settings, matches the performance of top methods for dataset transferability in image classification, and performs best on architecture selection problems for image classification.

We demonstrate that challenging shortest path problems can be solved via direct spline regression from a neural network, trained in an unsupervised manner (i.e. without requiring ground truth optimal paths for training). To achieve this, we derive a geometry-dependent optimal cost function whose minima guarantees collision-free solutions. Our method beats state-of-the-art supervised learning baselines for shortest path planning, with a much more scalable training pipeline, and a significant speedup in inference time.

The development of data-dependent heuristics and representations for biological sequences that reflect their evolutionary distance is critical for large-scale biological research. However, popular machine learning approaches, based on continuous Euclidean spaces, have struggled with the discrete combinatorial formulation of the edit distance that models evolution and the hierarchical relationship that characterises real-world datasets. We present Neural Distance Embeddings (NeuroSEED), a general framework to embed sequences in geometric vector spaces, and illustrate the effectiveness of the hyperbolic space that captures the hierarchical structure and provides an average 38% reduction in embedding RMSE against the best competing geometry. The capacity of the framework and the significance of these improvements are then demonstrated devising supervised and unsupervised NeuroSEED approaches to multiple core tasks in bioinformatics. Benchmarked with common baselines, the proposed approaches display significant accuracy and/or runtime improvements on real-world datasets. As an example for hierarchical clustering, the proposed pretrained and from-scratch methods match the quality of competing baselines with 30x and 15x runtime reduction, respectively.