19,592 research outputs found
Atlas Toolkit: Fast registration of 3D morphological datasets in the absence of landmarks
Image registration is a gateway technology for Developmental Systems Biology, enabling computational analysis of related datasets within a shared coordinate system. Many registration tools rely on landmarks to ensure that datasets are correctly aligned; yet suitable landmarks are not present in many datasets. Atlas Toolkit is a Fiji/ImageJ plugin collection offering elastic group-wise registration of 3D morphological datasets, guided by segmentation of the interesting morphology. We demonstrate the method by combinatorial mapping of cell signalling events in the developing eyes of chick embryos, and use the integrated datasets to predictively enumerate Gene Regulatory Network states
A deep matrix factorization method for learning attribute representations
Semi-Non-negative Matrix Factorization is a technique that learns a
low-dimensional representation of a dataset that lends itself to a clustering
interpretation. It is possible that the mapping between this new representation
and our original data matrix contains rather complex hierarchical information
with implicit lower-level hidden attributes, that classical one level
clustering methodologies can not interpret. In this work we propose a novel
model, Deep Semi-NMF, that is able to learn such hidden representations that
allow themselves to an interpretation of clustering according to different,
unknown attributes of a given dataset. We also present a semi-supervised
version of the algorithm, named Deep WSF, that allows the use of (partial)
prior information for each of the known attributes of a dataset, that allows
the model to be used on datasets with mixed attribute knowledge. Finally, we
show that our models are able to learn low-dimensional representations that are
better suited for clustering, but also classification, outperforming
Semi-Non-negative Matrix Factorization, but also other state-of-the-art
methodologies variants.Comment: Submitted to TPAMI (16-Mar-2015
Harvesting Discriminative Meta Objects with Deep CNN Features for Scene Classification
Recent work on scene classification still makes use of generic CNN features
in a rudimentary manner. In this ICCV 2015 paper, we present a novel pipeline
built upon deep CNN features to harvest discriminative visual objects and parts
for scene classification. We first use a region proposal technique to generate
a set of high-quality patches potentially containing objects, and apply a
pre-trained CNN to extract generic deep features from these patches. Then we
perform both unsupervised and weakly supervised learning to screen these
patches and discover discriminative ones representing category-specific objects
and parts. We further apply discriminative clustering enhanced with local CNN
fine-tuning to aggregate similar objects and parts into groups, called meta
objects. A scene image representation is constructed by pooling the feature
response maps of all the learned meta objects at multiple spatial scales. We
have confirmed that the scene image representation obtained using this new
pipeline is capable of delivering state-of-the-art performance on two popular
scene benchmark datasets, MIT Indoor 67~\cite{MITIndoor67} and
Sun397~\cite{Sun397}Comment: To Appear in ICCV 201
Data-Driven Shape Analysis and Processing
Data-driven methods play an increasingly important role in discovering
geometric, structural, and semantic relationships between 3D shapes in
collections, and applying this analysis to support intelligent modeling,
editing, and visualization of geometric data. In contrast to traditional
approaches, a key feature of data-driven approaches is that they aggregate
information from a collection of shapes to improve the analysis and processing
of individual shapes. In addition, they are able to learn models that reason
about properties and relationships of shapes without relying on hard-coded
rules or explicitly programmed instructions. We provide an overview of the main
concepts and components of these techniques, and discuss their application to
shape classification, segmentation, matching, reconstruction, modeling and
exploration, as well as scene analysis and synthesis, through reviewing the
literature and relating the existing works with both qualitative and numerical
comparisons. We conclude our report with ideas that can inspire future research
in data-driven shape analysis and processing.Comment: 10 pages, 19 figure
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