http://software.incf.net daily 1 2009-11-01T22:39:39Z http://software.incf.net/software/information-breakdown-toolbox-ibtb The toolbox has several key features that make it useful to the neuroscience community and that will widen the domain of application of information theory to neuro- science. No publisher betty 2010-09-07T07:21:47Z Software http://software.incf.net/software/dsi-studio DSI Studio is a software for diffusion MR images analysis. The provided functions include reconstruction (DTI, QBI, DSI, and GQI), deterministic fiber tracking, and 3D visualization. It has a window-based interface and operates on Microsoft Windows system. http://dsi-studio.labsolver.org No publisher admin End Users Production/Stable C++ BSD License Linux Windows Console (Text Based) Win32 (MS Windows) English Quantification Tensor Metric Image Reconstruction Visualization Diffusion MR Fiber Tracking NIfTI-1 DICOM ANALYZE Other Format Q-Ball Diffusion Spectrum 2010-09-05T04:12:00Z Software http://software.incf.net/software/absorb-for-groupwise-registration This software package implements ABSORB: Atlas Building by Self-Organized Registration and Bundling – an algorithm for effective groupwise registration, which has been published as: Hongjun Jia, Guorong Wu, Qian Wang, Dinggang Shen, "ABSORB: Atlas Building by Self-Organized Registration and Bundling", NeuroImage, Vol. 51, No. 3, 1 July 2010, pp. 1057-1070. The package is available free to the public for the academic research purpose at http://bric.unc.edu/ideagroup/free-softwares/. The required input is a set of 3D MR intensity images (in Analyze format with paired .hdr and .img files) with a text file (.txt) listing all header file (.hdr) names. The output is the set of registered images together with the corresponding dense deformation fields. This software has been tested on Windows XP (32-bit) and Linux (64-bit, kernel version 2.6.18-194.el5). This software was developed in IDEA group in UNC-Chapel Hill. For more information, please visit our lab at http://bric.unc.edu/ideagroup. No publisher admin End Users Developers System Administrators Other Audience Alpha Beta Production/Stable C C++ Linux Other Programming Language Windows 95/98/2000 Windows NT/2000 X11 Applications Win32 (MS Windows) Other Environment English Algorithm or Reusable Library Affine Warp Nonlinear Warp Image-to-Template Intermodal Intersubject Intrasubject ANALYZE Windows Vista 3D Slicer License SBIA License PDF - Portable Document Format Microsoft Word Document Windows XP 2010-09-01T18:29:00Z Software http://software.incf.net/software/dfbidb DFBIdb is a suite of tools for efficient management of neuroimaging project data. Specifically, DFBIdb was designed to allow users to quickly perform routine management tasks of sorting, archiving, exploring, exporting and organising raw data. DFBIdb was implemented as a collection of Python scripts that maintain a project-based, centralised database that is based on the XCEDE 2 data model. Project data is imported from a filesystem hierarchy of raw files, which is an often-used convention of imaging devices, using a single script that catalogues meta-data into a modified XCEDE 2 data model. During the import process data are reversibly anonymised, archived and compressed. The import script was designed to support multiple file formats and features an extensible framework that can be adapted to novel file formats. Graphical user interfaces are provided for data exploration. DFBIdb includes facilities to export, convert and organise customisable subsets of project data according to user-specified criteria. No publisher admin GNU General Public License (GPL) 2010-09-01T03:37:10Z Software http://software.incf.net/software/dtibrainscope This is a software package for processing diffusion tensor imaging data. The following functions are included: 1. Converting imaging data in DICOME format to ANALYZE format 2. Extracting binary brain mask for quick scalp-removing 3. Correcting eddy-current induced distortion 4. Optimized tensor estimation based on noisy diffusion-weighted imaging (DWI) data 5. Scalp removal using a brain mask image 6. Corregistering imaging data and generating deformation field for mapping images from individual spaces to a template or target space 7. Spatial Normalization and Warping DTI 8. Fiber tracking 9. Clustering fiber tracts 10. Identifying brain ventricles and generating binary masks for the baseline and DW imaging data 11. Deriving diffusion anisotropy indices (DAIs) and principal directions (PD) and the corresponding color-coded PD-map. No publisher admin dtiBrainScope 2010-08-30T18:32:05Z Software http://software.incf.net/software/helmholtz A framework for creating neuroscience databases based on the Django web-development framework No publisher andrewdavison 2010-08-30T07:14:16Z Software http://software.incf.net/software/nineml Tools for working with the NineML model description language No publisher andrewdavison 2010-08-26T13:41:22Z Software http://software.incf.net/software/axonal-beading-and-microtubule-quantification Interactive image analysis software for quantifying axonal beading morphology and focal microtubule loss using phase and fluorescent images a neuron. No publisher kilincde morphometry co-localization axonal beading axonal injury 2010-08-26T10:43:44Z Software http://software.incf.net/software/waxholm-space Waxholm Space is a coordinate-based reference space for the mapping and registration of neuroanatomical data in the mouse brain. No publisher janis atlas rodent mri nissl 2010-08-26T07:13:50Z Software http://software.incf.net/software/brainvisa-morphology-extensions An extension projects providing computational tools for performing regional morphological measurements to assess groupwise differences and track morphological changes during maturation and aging. The extensions include computation of regional GM thickness, 3D gyrification index, sulcal lenght and depth and sulcal span. These tools are distributed in the form of plugins for a popular analysis package BrainVisa No publisher admin End Users Production/Stable Artistic License C++ Linux Windows MacOS X11 Applications English Shape Analysis Image Display Morphology NIfTI-1 ANALYZE Other Format 2010-08-25T19:22:00Z Software