Neuroimaging study designs, computational analyses and data provenance using the LONI pipeline.

Modern computational neuroscience employs diverse software tools and multidisciplinary expertise to analyze heterogeneous brain data. The classical problems of gathering meaningful data, fitting specific models, and discovering appropriate analysis and visualization tools give way to a new class of computational challenges--management of large and incongruous data, integration and interoperability of computational resources, and data provenance. We designed, implemented and validated a new paradigm for addressing these challenges in the neuroimaging field. Our solution is based on the LONI Pipeline environment [3], [4], a graphical workflow environment for constructing and executing complex data processing protocols. We developed study-design, database and visual language programming functionalities within the LONI Pipeline that enable the construction of complete, elaborate and robust graphical workflows for analyzing neuroimaging and other data. These workflows facilitate open sharing and communication of data and metadata, concrete processing protocols, result validation, and study replication among different investigators and research groups. The LONI Pipeline features include distributed grid-enabled infrastructure, virtualized execution environment, efficient integration, data provenance, validation and distribution of new computational tools, automated data format conversion, and an intuitive graphical user interface. We demonstrate the new LONI Pipeline features using large scale neuroimaging studies based on data from the International Consortium for Brain Mapping [5] and the Alzheimer's Disease Neuroimaging Initiative [6]. User guides, forums, instructions and downloads of the LONI Pipeline environment are available at http://pipeline.loni.ucla.edu

High-resolution optical and SAR image fusion for building database updating

This paper addresses the issue of cartographic database (DB) creation or updating using high-resolution synthetic aperture radar and optical images. In cartographic applications, objects of interest are mainly buildings and roads. This paper proposes a processing chain to create or update building DBs. The approach is composed of two steps. First, if a DB is available, the presence of each DB object is checked in the images. Then, we verify if objects coming from an image segmentation should be included in the DB. To do those two steps, relevant features are extracted from images in the neighborhood of the considered object. The object removal/inclusion in the DB is based on a score obtained by the fusion of features in the framework of Dempster–Shafer evidence theory

Extending OWL-S for the Composition of Web Services Generated With a Legacy Application Wrapper

Despite numerous efforts by various developers, web service composition is still a difficult problem to tackle. Lot of progressive research has been made on the development of suitable standards. These researches help to alleviate and overcome some of the web services composition issues. However, the legacy application wrappers generate nonstandard WSDL which hinder the progress. Indeed, in addition to their lack of semantics, WSDLs have sometimes different shapes because they are adapted to circumvent some technical implementation aspect. In this paper, we propose a method for the semi automatic composition of web services in the context of the NeuroLOG project. In this project the reuse of processing tools relies on a legacy application wrapper called jGASW. The paper describes the extensions to OWL-S in order to introduce and enable the composition of web services generated using the jGASW wrapper and also to implement consistency checks regarding these services.Comment: ICIW 2012, The Seventh International Conference on Internet and Web Applications and Services, Stuttgart : Germany (2012

Robust Registration of Calcium Images by Learned Contrast Synthesis

Multi-modal image registration is a challenging task that is vital to fuse complementary signals for subsequent analyses. Despite much research into cost functions addressing this challenge, there exist cases in which these are ineffective. In this work, we show that (1) this is true for the registration of in-vivo Drosophila brain volumes visualizing genetically encoded calcium indicators to an nc82 atlas and (2) that machine learning based contrast synthesis can yield improvements. More specifically, the number of subjects for which the registration outright failed was greatly reduced (from 40% to 15%) by using a synthesized image