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

Maximum Persistency in Energy Minimization

We consider discrete pairwise energy minimization problem (weighted constraint satisfaction, max-sum labeling) and methods that identify a globally optimal partial assignment of variables. When finding a complete optimal assignment is intractable, determining optimal values for a part of variables is an interesting possibility. Existing methods are based on different sufficient conditions. We propose a new sufficient condition for partial optimality which is: (1) verifiable in polynomial time (2) invariant to reparametrization of the problem and permutation of labels and (3) includes many existing sufficient conditions as special cases. We pose the problem of finding the maximum optimal partial assignment identifiable by the new sufficient condition. A polynomial method is proposed which is guaranteed to assign same or larger part of variables than several existing approaches. The core of the method is a specially constructed linear program that identifies persistent assignments in an arbitrary multi-label setting.Comment: Extended technical report for the CVPR 2014 paper. Update: correction to the proof of characterization theore

Finding Connected Components in a Gray Scale Image

Abstract—Finding connected components are well defined for binary images. The concept of connected components can be extended for gray level image. But the problem is the criteria based on which a connected component would be defined. A gray level image is an image having 256 different pixel intensity levels. If we consider connected regions having only a particular pixel values, the number of connected components would not be meaningful and the purpose of finding connected components would be lost. So, we define a connected component in a gray scale image based on range of pixel mapping and new method to find connected components in a gray scale image is proposed. Three different types of pixel range mapping are introduced, using connected components in a gray level image can be successfully found. Connected components in a gray level image are the segments of image having the same range of pixel values. Different regions or segments of image can be found easily.Keywords—Connected component, gray scale labelling, pixel range mapping, linear mapping, logarithmic mapping, square root mapping.(Article history: Received 1 November 2016 and accepted 30 December 2016

Labeling Color 2D Digital Images in Theoretical Near Logarithmic Time

A design of a parallel algorithm for labeling color flat zones (precisely, 4-connected components) of a gray-level or color 2D digital image is given. The technique is based in the construction of a particular Homological Spanning Forest (HSF) structure for encoding topological information of any image.HSFis a pair of rooted trees connecting the image elements at inter-pixel level without redundancy. In order to achieve a correct color zone labeling, our proposal here is to correctly building a sub- HSF structure for each image connected component, modifying an initial HSF of the whole image. For validating the correctness of our algorithm, an implementation in OCTAVE/MATLAB is written and its results are checked. Several kinds of images are tested to compute the number of iterations in which the theoretical computing time differs from the logarithm of the width plus the height of an image. Finally, real images are to be computed faster than random images using our approach.Ministerio de Economía y Competitividad TEC2016-77785-PMinisterio de Economía y Competitividad MTM2016-81030-