Semantic Context Forests for Learning-Based Knee Cartilage Segmentation in 3D MR Images

The automatic segmentation of human knee cartilage from 3D MR images is a useful yet challenging task due to the thin sheet structure of the cartilage with diffuse boundaries and inhomogeneous intensities. In this paper, we present an iterative multi-class learning method to segment the femoral, tibial and patellar cartilage simultaneously, which effectively exploits the spatial contextual constraints between bone and cartilage, and also between different cartilages. First, based on the fact that the cartilage grows in only certain area of the corresponding bone surface, we extract the distance features of not only to the surface of the bone, but more informatively, to the densely registered anatomical landmarks on the bone surface. Second, we introduce a set of iterative discriminative classifiers that at each iteration, probability comparison features are constructed from the class confidence maps derived by previously learned classifiers. These features automatically embed the semantic context information between different cartilages of interest. Validated on a total of 176 volumes from the Osteoarthritis Initiative (OAI) dataset, the proposed approach demonstrates high robustness and accuracy of segmentation in comparison with existing state-of-the-art MR cartilage segmentation methods.Comment: MICCAI 2013: Workshop on Medical Computer Visio

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

Efficient Yet Deep Convolutional Neural Networks for Semantic Segmentation

Semantic Segmentation using deep convolutional neural network pose more complex challenge for any GPU intensive task. As it has to compute million of parameters, it results to huge memory consumption. Moreover, extracting finer features and conducting supervised training tends to increase the complexity. With the introduction of Fully Convolutional Neural Network, which uses finer strides and utilizes deconvolutional layers for upsampling, it has been a go to for any image segmentation task. In this paper, we propose two segmentation architecture which not only needs one-third the parameters to compute but also gives better accuracy than the similar architectures. The model weights were transferred from the popular neural net like VGG19 and VGG16 which were trained on Imagenet classification data-set. Then we transform all the fully connected layers to convolutional layers and use dilated convolution for decreasing the parameters. Lastly, we add finer strides and attach four skip architectures which are element-wise summed with the deconvolutional layers in steps. We train and test on different sparse and fine data-sets like Pascal VOC2012, Pascal-Context and NYUDv2 and show how better our model performs in this tasks. On the other hand our model has a faster inference time and consumes less memory for training and testing on NVIDIA Pascal GPUs, making it more efficient and less memory consuming architecture for pixel-wise segmentation.Comment: 8 page

Recurrent Human Pose Estimation

We propose a novel ConvNet model for predicting 2D human body poses in an image. The model regresses a heatmap representation for each body keypoint, and is able to learn and represent both the part appearances and the context of the part configuration. We make the following three contributions: (i) an architecture combining a feed forward module with a recurrent module, where the recurrent module can be run iteratively to improve the performance, (ii) the model can be trained end-to-end and from scratch, with auxiliary losses incorporated to improve performance, (iii) we investigate whether keypoint visibility can also be predicted. The model is evaluated on two benchmark datasets. The result is a simple architecture that achieves performance on par with the state of the art, but without the complexity of a graphical model stage (or layers).Comment: FG 2017, More Info and Demo: http://www.robots.ox.ac.uk/~vgg/software/keypoint_detection