Recursive Training of 2D-3D Convolutional Networks for Neuronal Boundary Detection

Efforts to automate the reconstruction of neural circuits from 3D electron microscopic (EM) brain images are critical for the field of connectomics. An important computation for reconstruction is the detection of neuronal boundaries. Images acquired by serial section EM, a leading 3D EM technique, are highly anisotropic, with inferior quality along the third dimension. For such images, the 2D max-pooling convolutional network has set the standard for performance at boundary detection. Here we achieve a substantial gain in accuracy through three innovations. Following the trend towards deeper networks for object recognition, we use a much deeper network than previously employed for boundary detection. Second, we incorporate 3D as well as 2D filters, to enable computations that use 3D context. Finally, we adopt a recursively trained architecture in which a first network generates a preliminary boundary map that is provided as input along with the original image to a second network that generates a final boundary map. Backpropagation training is accelerated by ZNN, a new implementation of 3D convolutional networks that uses multicore CPU parallelism for speed. Our hybrid 2D-3D architecture could be more generally applicable to other types of anisotropic 3D images, including video, and our recursive framework for any image labeling problem

Segmentation-Aware Convolutional Networks Using Local Attention Masks

We introduce an approach to integrate segmentation information within a convolutional neural network (CNN). This counter-acts the tendency of CNNs to smooth information across regions and increases their spatial precision. To obtain segmentation information, we set up a CNN to provide an embedding space where region co-membership can be estimated based on Euclidean distance. We use these embeddings to compute a local attention mask relative to every neuron position. We incorporate such masks in CNNs and replace the convolution operation with a "segmentation-aware" variant that allows a neuron to selectively attend to inputs coming from its own region. We call the resulting network a segmentation-aware CNN because it adapts its filters at each image point according to local segmentation cues. We demonstrate the merit of our method on two widely different dense prediction tasks, that involve classification (semantic segmentation) and regression (optical flow). Our results show that in semantic segmentation we can match the performance of DenseCRFs while being faster and simpler, and in optical flow we obtain clearly sharper responses than networks that do not use local attention masks. In both cases, segmentation-aware convolution yields systematic improvements over strong baselines. Source code for this work is available online at http://cs.cmu.edu/~aharley/segaware

Real-time single image and video super-resolution using an efficient sub-pixel convolutional neural network

Recently, several models based on deep neural networks have achieved great success in terms of both reconstruction accuracy and computational performance for single image super-resolution. In these methods, the low resolution (LR) input image is upscaled to the high resolution (HR) space using a single filter, commonly bicubic interpolation, before reconstruction. This means that the super-resolution (SR) operation is performed in HR space. We demonstrate that this is sub-optimal and adds computational complexity. In this paper, we present the first convolutional neural network (CNN) capable of real-time SR of 1080p videos on a single K2 GPU. To achieve this, we propose a novel CNN architecture where the feature maps are extracted in the LR space. In addition, we introduce an efficient sub-pixel convolution layer which learns an array of upscaling filters to upscale the final LR feature maps into the HR output. By doing so, we effectively replace the handcrafted bicubic filter in the SR pipeline with more complex upscaling filters specifically trained for each feature map, whilst also reducing the computational complexity of the overall SR operation. We evaluate the proposed approach using images and videos from publicly available datasets and show that it performs significantly better (+0.15dB on Images and +0.39dB on Videos) and is an order of magnitude faster than previous CNN-based methods