| BioPortal |
| A Web portal to a virtual library of ontologies and ontology tools |
| Authors: | Lynn Murphy and Archana Vembakam |
| Organization: | NCBO |
| License: | Mozilla |
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| Phenote |
| A tool to use ontologies for annotating biomedical knowledge |
| Authors: | Mark Gibson |
| Organization: | NCBO |
| License: | Mozilla |
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| OBO Converter |
| Converts OBO-EDIT to OWL and vice versa |
| Authors: | Dilvan Monera |
| Organization: | NCBO |
| License: | Mozilla |
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| Jambalaya |
| A tool for visualizing ontologies |
| Authors: | Chris Callendar |
| Organization: | NCBO |
| License: | Open source |
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| OBO Edit |
| An ontology authoring tool |
| Authors: | John Day Richter |
| Organization: | NCBO |
| License: | Mozilla |
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| Protégé |
| An ontology authoring tool |
| Authors: | Ray Fergerson |
| Organization: | NCBO |
| License: | Mozilla |
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| PROMPT |
| A tool for aligning and mapping ontologies |
| Authors: | Natasha Noy |
| Organization: | NCBO |
| License: | Mozilla |
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| LexGrid |
| A data store for terminologies and ontologies unifying disparate formats into a Common Terminological Model |
| Authors: | Harold Solbrig |
| Organization: | NCBO |
| License: | Open source |
| |
| Brain Surface Extractor |
| Brain Surface Extraction: Designed to automatically extract the brain from a set of T1 weighted Magnetic Resonance (MR) images of the human head. |
| Authors: | David Shattuck , Richard Leahy, Stephanie Sandor, Bijan Timsari |
| Organization: | UCLA Center for Computational Biology |
| License: | CCB License |
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| Sub-Volume Thresholding Analysis |
| A tool for Statistical Analysis of Stereotactic Functional Brain Data |
| Authors: | Ivo D. Dinov |
| Organization: | UCLA Center for Computational Biology |
| License: | CCB License |
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| Wavelet Analysis of Image Registration |
| A tool for quantitative analysis of various n-dimensional (n-D) image registration techniques. |
| Authors: | Ivo D. Dinov |
| Organization: | UCLA Center for Computational Biology |
| License: | CCB License |
| |
| Automated Image Registration |
| A tool for automated registration of 3D and 2D images within and across subjects and across imaging modalities. |
| Authors: | Roger P. Woods |
| Organization: | UCLA Center for Computational Biology |
| License: | CCB License |
| |
| Statistical Online Computational Resource |
| The SOCR resource provides a hierarchy of portable online interactive aids for motivating, modernizing probability and statistics applications. |
| Authors: | I. Dinov, Juana Sanchez, Nicolas, Christou, Robert Gould, J. Ma, J. Hu, D. Ylvisaker, R. Gould, J. Landerman, H. Wang, P. Efstathopoulos, F. Konstantinidios, Arthur Toga |
| Organization: | UCLA Center for Computational Biology |
| License: | CCB License |
| |
| LONI Debabeler |
| The LONI Debabeler enables researchers to manage the conversion of imaging data from one file format to another using a graphical user interface. |
| Authors: | Scott C Neu and Daniel J Valentino |
| Organization: | UCLA Center for Computational Biology |
| License: | CCB License |
| |
| MultiPhase-SEG |
| MultiPhase-SEG is a segmentation software that employs the implementation of the active contours without edges level set based segmentation model. |
| Authors: | Igor Yanovskiy |
| Organization: | UCLA Center for Computational Biology |
| License: | CCB License |
| |
| Extract4DUcfAttributes |
| The Extract4DUcfAttributes application extracts data attributes associated with each vertex of a Ucf file. |
| Authors: | Craig Schwartz |
| Organization: | UCLA Center for Computational Biology |
| License: | CCB License |
| |
| ShapeCurvature |
| The ShapeCurvature application allows researchers to calculate the curvature of a surface mesh that is stored in a shape file. These curvature values may be written to disk files in a variety of file formats. |
| Authors: | Bae Cheol Shin and Craig Schwartz |
| Organization: | UCLA Center for Computational Biology |
| License: | CCB License |
| |
| ShapeToDX |
| The ShapeToDX application is a Java application that translates data files that can be read by the ShapeTools library into an OpenDX \genreal format\" data file." |
| Authors: | Craig Schwartz |
| Organization: | UCLA Center for Computational Biology |
| License: | CCB License |
| |
| FFT Library |
| An FFT library in Java |
| Authors: | Herbert Chang and Daniel Valentino |
| Organization: | UCLA Center for Computational Biology |
| License: | CCB License |
| |
| Charged Fluid Model for Vascular Segmentation |
| A computer-aided took for 3D vascular tree segmentation using an electrostatic charged fluid model. |
| Authors: | Herbert Chang |
| Organization: | UCLA Center for Computational Biology |
| License: | CCB License |
| |
| Charged Fluid Model for Brain Image Segmentation |
| CCFMBIS is a computer-aided tool for 2-D brain image segmentation using an electrostatic charged fluid model. |
| Authors: | Herbert Chang,Daniel Valentiino, Gary Duckwiler, and Arthur Toga |
| Organization: | UCLA Center for Computational Biology |
| License: | CCB License |
| |
| BrainSuite2 |
| BrainSuite2 is a magnetic resonance (MR) image analysis tool designed for identifying tissue types and surfaces in MR images of the human head. |
| Authors: | David W. Shattuck |
| Organization: | UCLA Center for Computational Biology |
| License: | CCB License |
| |
| DualSurfaceMin |
| The dualsurfacemin is a C++ implementation of the fully automatic dual surface minimization (DSM) algorithm for the optimization of deformable surfaces [1]. The method is developed for automatic surface extraction from noisy volumetric images. |
| Authors: | Jussi Tohka, Mikko Itäranta and Jouni Mykkänen |
| Organization: | UCLA Center for Computational Biology |
| License: | CCB License |
| |
| LONI De-identification Debablet |
| A simple to use Java application for removing patient-identifying information (e.g., patient name and id) from medical image files. |
| Authors: | Scott C. Neu and Karen Crawford |
| Organization: | UCLA Center for Computational Biology |
| License: | CCB License |
| |
| InterpolateUcf |
| InterpolateUcf is a java based tool that interpolates contour vertices and data attributes in a Ucf file. |
| Authors: | Craig Schwartz |
| Organization: | UCLA Center for Computational Biology |
| License: | CCB License |
| |
| LONI ShapeTools |
| The ShapeTools library is a collection of Java classes that enable Java programmers to model and manipulate geometric shapes and associated data values. |
| Authors: | Craig Schwartz |
| Organization: | UCLA Center for Computational Biology |
| License: | CCB License |
| |
| LONI ShapeDistance |
| A tool for calculating the distance between vertices of two shape files |
| Authors: | Craig Schwartz |
| Organization: | UCLA Center for Computational Biology |
| License: | CCB License |
| |
| DXJava |
| The DXJava is a collection of Java classes that enable Java programmers to read and write OpenDX general format files. |
| Authors: | Craig Schwartz |
| Organization: | UCLA Center for Computational Biology |
| License: | CCB License |
| |
| LONI ShapeViewerApplet |
| The ShapeViewerApplet displays three dimensional shapes in a web page |
| Authors: | Jeff Q. Ma |
| Organization: | UCLA Center for Computational Biology |
| License: | CCB License |
| |
| ShapeTransform |
| The ShapeTransform application facilitates the moveof a shape file from one coordinate system to another. |
| Authors: | Bae Cheol Shin and Craig Schwartz |
| Organization: | UCLA Center for Computational Biology |
| License: | CCB License |
| |
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