Curator Dashboard

Software package for constructing longitudinal atlases, which are the necessary steps for many brain-related applications.

• Resource
• SciCrunch
• 14 years ago - by Anonymous

Software R package to create, modify, analyze, and visualize network graph diagrams. Graph and network visualization using tabular data in R.

• Resource
• RRID
• 3 years ago - by Anonymous

Software that evaluates the sequence around differentially regulated alternative exons to identify clusters of short and degenerate sequences, referred to as multivalent RNA motifs.

• Resource
• SciCrunch
• 13 years ago - by Anonymous

A MATLAB Toolbox for generating realistic head models from available data (MRI and/or electrode locations), for computing numerical solutions for the forward problem of electromagnetic source imaging and for single dipole source localization. The NFT includes tools for segmenting scalp, skull, cerebrospinal fluid (CSF) and brain tissues from T1-weighted magnetic resonance (MR) images. The Boundary Element Method (BEM) and Finite Element Method (FEM) are used for the numerical solution of the forward problem. When a subject MR image is not available a template head model can be warped to measured electrode locations to obtain an individualized head model. Toolbox functions may be called either from a graphic user interface compatible with EEGLAB or from the MATLAB command line.

• Resource
• SciCrunch
• 14 years ago - by Anonymous

Software Python library for hierarchical clustering. Fast Hierarchical, Agglomerative Clustering Routines for R and Python.

• Resource
• RRID
• 3 years ago - by Anonymous

This resource provides information on: -- a definition of social anxiety disorder (social phobia) -- practical examples of what life is like for people with social phobia, -- an invitation to join a free moderated mailing list edited specifically for people with social phobia (social anxiety disorder)

• Resource
• SciCrunch
• 17 years ago - by Anonymous

Stimulus delivery and experiment control program. Stimuli include auditory, 2D and 3D visual, and multimodal and experimental data include fMRI, ERP, MEG, psychophysics, eye movements, single neuron recording, and reaction time measures.

• Resource
• SciCrunch
• 14 years ago - by Anonymous

THIS TEST is a

• Resource
• NIF
• 3 years ago - by Anonymous

Discussion forum on licensing issues in software and data. All are invited to participate or join the project and contribute. A listing of software licenses are available.

• Resource
• SciCrunch
• 14 years ago - by Anonymous

Software application that uses a Monte Carlo algorithm to model the transport of photons through 3D volumes with spatially varying optical properties. Both highly-scattering tissues (e.g. white matter) and weakly scattering tissues (e.g. cerebral spinal fluid) are supported. Using the anatomical information provided by MRI, X-ray CT, or ultrasound, accurate solutions to the photon migration forward problems are computed in times ranging from minutes to hours, depending on the optical properties and the computing resources available.

• Resource
• SciCrunch
• 14 years ago - by Anonymous

Core offers comprehensive statistical and bioinformatic analysis, consultation, collaboration, and technical services.

• Resource
• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Private, non-profit institution dedicated to utilizing knowledge in science, engineering, technology and health to improve government decision making and public policy as well as increase public education and understanding. The council collects, analyzes and shares information and knowledge through activities such as consensus studies, meetings and workshops, and program and research management.

• Resource
• SciCrunch
• 17 years ago - by Anonymous

Software package designed to enable researchers with advanced tools for brain and image mapping. Many of the ANTS registration tools are diffeomorphic*, but deformation (elastic and BSpline) transformations are available. Unique components of ANTS include multivariate similarity metrics, landmark guidance, the ability to use label images to guide the mapping and both greedy and space-time optimal implementations of diffeomorphisms. The symmetric normalization (SyN) strategy is a part of the ANTS toolkit as is directly manipulated free form deformation (DMFFD). *Diffeomorphism: a differentiable map with differentiable inverse. In general, these maps are generated by integrating a time-dependent velocity field. ANTS Applications: * Gray matter morphometry based on the jacobian and/or cortical thickness. * Group and single-subject optimal templates. * Multivariate DT + T1 brain templates and group studies. * Longitudinal brain mapping -- special similarity metric options. * Neonatal and pediatric brain segmentation. * Pediatric brain mapping. * T1 brain mapping guided by tractography and connectivity. * Diffusion tensor registration based on scalar or connectivity data. * Brain mapping in the presence of lesions. * Lung and pulmonary tree registration. * User-guided hippocampus labeling, also of sub-fields. * Group studies and statistical analysis of cortical thickness, white matter volume, diffusion tensor-derived metrics such as fractional anisotropy and mean diffusion.

• Resource
• SciCrunch
• 16 years ago - by Anonymous

Software library to calculate Pathways Activation Levels. It takes file that contains gene symbols in HGNC format, their expression levels for one or more samples and calculates PAL values for each pathway in each sample.

• Resource
• RRID
• 3 years ago - by Anonymous

Sampling protocols produced by the BrainNet Europe Consortium generally with five types of dissection and brain processing procedures defined in all disease related protocols. * Fresh brain dissection * Fresh brain processing * Dissection of formalin-fixed brain * Histology and immunohistochemistry * Processing fresh brain

• Resource
• SciCrunch
• 13 years ago - by Anonymous

Software toolbox to facilitate quick and easy import, visualization and measurement for Event Related Potential (ERP) data. The toolbox can open and visualise ERP averaged data (Neuroscan, ascii formats), 2D/3D electrode coordinates and 3D cerebral tissue tesselations (meshes). All the features can be explored quickly and easily using the example data provided in the toolbox. The GUI interface is simple and intuitive.

• Resource
• SciCrunch
• 17 years ago - by Anonymous

Platform that systematizes interpretation of cancer genomes and makes it automatic. Web tool to annotate genomic alterations and interpret their possible role in tumorigenesis and in response to anti cancer therapies. Used to support identification of tumor alterations that drive disease and/or which may be therapeutically actionable. Analyses mutations including single nucleotide changes and small insertions/deletions, copy number alterations including gene amplifications and deletions and translocations.

• Resource
• RRID
• 3 years ago - by Anonymous

A resource and online book on neurology and neurosurgery. The book covers topics such as neurological symptoms, consciousness and unconsciousness, trauma, seizure disorders and dementia.

• Resource
• SciCrunch
• 16 years ago - by Anonymous

Open Source MATLAB toolbox and EEGLAB plugin for the design, prototyping, testing, experimentation with, and evaluation of Brain-Computer Interfaces (BCIs), and other systems in the same computational framework. It facilitates the design and development of new methods for cognitive state estimation and their use in both offline data analysis and real-time applications. BCILAB includes an easily extensible collection of currently over 100 methods from the literature (covering signal processing, machine learning and BCI-specific methods). Aside from supporting advanced BCI research, a special aim of BCILAB is to facilitate the adoption of machine learning and advanced statistical modeling for functional neuroimaging purposes in tandem with the EEGLAB platform. The toolbox offers multiple different interfaces which link to the same backend functionality, including a GUI, scripting support (MATLAB-based), APIs for real-time processing, and a variety of extension component interfaces. MATLAB programming is not strictly necessary, as most BCILAB features can be accessed from the GUI, although it is required for batch scripting and custom extensions. The strength of MATLAB-based software lies in its resources for leading-edge scientific computing, as well as in the good support for rapid prototyping, but BCI systems developed in it can be used for real-time out-of-lab experimentation, and can in principle be deployed without the need for a MATLAB license. However, due to the complexity and overhead of the MATLAB environment, the system is best used as a research platform, and not as a product development environment -- end-user software is ideally re-implemented in a compiled language, after a suitable approach has been identified and extensively tested. The process of identifying and testing an approach involves more than just computation, but also data exploration and investigation - an area which is helped by the deep integration with the EEGLAB platform. In the future, this integration will be further strengthened, bringing rich statistical learning and signal processing into routine EEG analysis workflows. The toolbox has been developed by C. Kothe at the Swartz Center, inspired by the preceding PhyPA BCI toolbox created by C. Kothe and T. Zander at the Chair for Human-Machine Systems, Berlin Institute of Technology.

• Resource
• SciCrunch
• 14 years ago - by Anonymous

Core specializes in areas of flow cytometry and cell sorting; light microscopy including confocal, widefield fluorescence, high content screening, lightsheet, slide scanning, highly multiplexed microscopy; and digital PCR / QPCR. It is located at University of Freiburg Medical Center and hosts institutions including Dept. of Medicine I, Center for Chronic Immunodeficiency (CCI), CCCF / DKTK, and Medical Faculty of University of Freiburg.

• Resource
• SciCrunch
• 3 years ago - submitted by Edyta Vieth