Segmentation and classification of individual tree crowns

By segmentation and classification of individual tree crowns in high spatial resolution aerial images, information about the forest can be automatically extracted. Segmentation is about finding the individual tree crowns and giving each of them a unique label. Classification, on the other hand, is about recognising the species of the tree. The information of each individual tree in the forest increases the knowledge about the forest which can be useful for managements, biodiversity assessment, etc. Different algorithms for segmenting individual tree crowns are presented and also compared to each other in order to find their strengths and weaknesses. All segmentation algorithms developed in this thesis focus on preserving the shape of the tree crown. Regions, representing the segmented tree crowns, grow according to certain rules from seed points. One method starts from many regions for each tree crown and searches for the region that fits the tree crown best. The other methods start from a set of seed points, representing the locations of the tree crowns, to create the regions. The segmentation result varies from 73 to 95 % correctly segmented visual tree crowns depending on the type of forest and the method. The former value is for a naturally generated mixed forest and the latter for a non-mixed forest. The classification method presented uses shape information of the segments and colour information of the corresponding tree crown in order to decide the species. The classification method classifies 77 % of the visual trees correctly in a naturally generated mixed forest, but on a forest stand level the classification is over 90 %

Deep Hierarchical Parsing for Semantic Segmentation

This paper proposes a learning-based approach to scene parsing inspired by the deep Recursive Context Propagation Network (RCPN). RCPN is a deep feed-forward neural network that utilizes the contextual information from the entire image, through bottom-up followed by top-down context propagation via random binary parse trees. This improves the feature representation of every super-pixel in the image for better classification into semantic categories. We analyze RCPN and propose two novel contributions to further improve the model. We first analyze the learning of RCPN parameters and discover the presence of bypass error paths in the computation graph of RCPN that can hinder contextual propagation. We propose to tackle this problem by including the classification loss of the internal nodes of the random parse trees in the original RCPN loss function. Secondly, we use an MRF on the parse tree nodes to model the hierarchical dependency present in the output. Both modifications provide performance boosts over the original RCPN and the new system achieves state-of-the-art performance on Stanford Background, SIFT-Flow and Daimler urban datasets.Comment: IEEE CVPR 201

Computerized Analysis of Magnetic Resonance Images to Study Cerebral Anatomy in Developing Neonates

The study of cerebral anatomy in developing neonates is of great importance for the understanding of brain development during the early period of life. This dissertation therefore focuses on three challenges in the modelling of cerebral anatomy in neonates during brain development. The methods that have been developed all use Magnetic Resonance Images (MRI) as source data. To facilitate study of vascular development in the neonatal period, a set of image analysis algorithms are developed to automatically extract and model cerebral vessel trees. The whole process consists of cerebral vessel tracking from automatically placed seed points, vessel tree generation, and vasculature registration and matching. These algorithms have been tested on clinical Time-of- Flight (TOF) MR angiographic datasets. To facilitate study of the neonatal cortex a complete cerebral cortex segmentation and reconstruction pipeline has been developed. Segmentation of the neonatal cortex is not effectively done by existing algorithms designed for the adult brain because the contrast between grey and white matter is reversed. This causes pixels containing tissue mixtures to be incorrectly labelled by conventional methods. The neonatal cortical segmentation method that has been developed is based on a novel expectation-maximization (EM) method with explicit correction for mislabelled partial volume voxels. Based on the resulting cortical segmentation, an implicit surface evolution technique is adopted for the reconstruction of the cortex in neonates. The performance of the method is investigated by performing a detailed landmark study. To facilitate study of cortical development, a cortical surface registration algorithm for aligning the cortical surface is developed. The method first inflates extracted cortical surfaces and then performs a non-rigid surface registration using free-form deformations (FFDs) to remove residual alignment. Validation experiments using data labelled by an expert observer demonstrate that the method can capture local changes and follow the growth of specific sulcus

Scene Parsing with Multiscale Feature Learning, Purity Trees, and Optimal Covers

Scene parsing, or semantic segmentation, consists in labeling each pixel in an image with the category of the object it belongs to. It is a challenging task that involves the simultaneous detection, segmentation and recognition of all the objects in the image. The scene parsing method proposed here starts by computing a tree of segments from a graph of pixel dissimilarities. Simultaneously, a set of dense feature vectors is computed which encodes regions of multiple sizes centered on each pixel. The feature extractor is a multiscale convolutional network trained from raw pixels. The feature vectors associated with the segments covered by each node in the tree are aggregated and fed to a classifier which produces an estimate of the distribution of object categories contained in the segment. A subset of tree nodes that cover the image are then selected so as to maximize the average "purity" of the class distributions, hence maximizing the overall likelihood that each segment will contain a single object. The convolutional network feature extractor is trained end-to-end from raw pixels, alleviating the need for engineered features. After training, the system is parameter free. The system yields record accuracies on the Stanford Background Dataset (8 classes), the Sift Flow Dataset (33 classes) and the Barcelona Dataset (170 classes) while being an order of magnitude faster than competing approaches, producing a 320 \times 240 image labeling in less than 1 second.Comment: 9 pages, 4 figures - Published in 29th International Conference on Machine Learning (ICML 2012), Jun 2012, Edinburgh, United Kingdo