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http://www.uniba.it/

Public university in Bari, Italy that offers a variety of degree programs including agricultural science, economics, education, and veterinary medicine.

Proper citation: University of Bari; Bari; Italy (RRID:SCR_002647) Copy   

•   Source: SciCrunch Registry
  

http://personalpages.manchester.ac.uk/staff/mathias.nilsson/software.htm

Software toolbox for processing PFG NMR diffusion data that aims to incorporate many of the important processing schemes. It has a graphical user interface to make it easy to access a variety of different processing schemes (and a command mode for more advanced options). It is written in MATLAB, but can also be obtained as free standing compiled version that does not require a MATLAB installation. The MATLAB version runs on any platform, and the compiled version is presently available for Windows, Linux, and Mac.

Proper citation: DOSY Toolbox (RRID:SCR_002409) Copy   

•   Source: SciCrunch Registry
  

http://www.nitrc.org/projects/rdti/

The package dti provides methods for structural adaptive smoothing of diffusion weighted data in the context of the diffusion tensor model. Through its edge preserving properties they reduce data noise without compromizing significant structures.

Proper citation: R-package for adaptive DWI analysis (RRID:SCR_002528) Copy   

•   Source: SciCrunch Registry
  

http://consurfdb.tau.ac.il/

Provides pre-calculated evolutionary conservation profiles for proteins of known structure in the PDB. Enables flexibility in setting the parameters of the calculation, and accepts optional uploads of atomic coordinates, multiple sequence alignments, and phylogenetic trees for use in the calculation of conservation profiles.

Proper citation: ConSurf Database (RRID:SCR_002320) Copy   

•   Source: SciCrunch Registry
  

http://sccn.ucsd.edu/wiki/SIFT

A GUI-enabled EEGLAB plugin for modeling and visualizing dynamical interactions between electrophysiological signals (EEG, ECoG, MEG, etc), preferably after transforming signals into the source domain. The toolbox consists of four modules: (1) Data Preprocessing, (2) Model Fitting and Connectivity Estimation, (3) Statistical Analysis, (4) Visualization, with a fifth Group Analysis module in development. Module 2 currently includes several adaptive multivariate autoregressive modeling (AMVAR) algorithms, including segmentation AMVAR and Kalman filtering. This subsequently allows the user to validate the model and estimate (in the time-frequency domain) a wide range of multivariate Granger-causal and coherence measures published to date. Module 3 includes routines for parametric and non-parametric significance testing. Module 4 contains routines for interactive visualization of dynamical interactions across time, frequency and anatomical source location.

Proper citation: Source Information Flow Toolbox (RRID:SCR_002561) Copy   

•   Source: SciCrunch Registry
  

http://www.glycosciences.de/

Portal of glycoinformatics resources including databases and bioinformatics tools for glycobiology and glycomics research. Databases include a bibliography, structure, nuclear magnetic resonance (NMR), mass spectroscopy (ms) and a PDB search.

Proper citation: glycosciences.de (RRID:SCR_002324) Copy   

•   Source: SciCrunch Registry
  

http://www.uca.edu/

Public research university in Conway, Arkansas that offers degree programs in nursing, education, physical therapy, business, performing arts, and psychology.

Proper citation: University of Central Arkansas; Arkansas; USA (RRID:SCR_002566) Copy   

•   Source: SciCrunch Registry
  

https://www.uantwerpen.be/en/

Public university in Antwerp, Belgium that offers programs in economics, engineering, arts, design sciences, and medicine and health.

Proper citation: University of Antwerp; Antwerp; Belgium (RRID:SCR_002444) Copy   

•   Source: SciCrunch Registry
  

http://www.ua.pt/

Public research university and polytechnic education center in Aveiro, Portugal. It offers undergraduate, graduate and post-graduate degree programs in applied mathematics, physics, chemistry, telecommunications, robotics, bioinformatics, sea sciences, materials, design, business administration and industrial engineering.

Proper citation: University of Aveiro; Aveiro; Portugal (RRID:SCR_002565) Copy   

•   Source: SciCrunch Registry
  

http://www.nitrc.org/projects/mcftool/

Software tool that provides a convenient environment to simulate NMR diffusion in closed pores. It builds on the eigenfunction expansion of the magnetization.

Proper citation: Multiple Correlation Function Tool (RRID:SCR_002321) Copy   

•   Source: SciCrunch Registry
  

http://www.nitrc.org/projects/misteri/

A powerful and modular medical image viewer/editor. It should be particularly useful to Undergraduates, Postdocs and Researchers in Medical Imaging to visualize data and to easily make attractive figures (for papers or presentations). It will also in a near future offer a number of advanced algorithms for medical image processing. Look at the video to get an idea ! http://www.benoitscherrer.com/MisterI/videos.html

Proper citation: MisterI (RRID:SCR_002317) Copy   

•   Source: SciCrunch Registry
  

http://www.nitrc.org/projects/msc_toolbox/

A Matlab-based software library to perform independent component analysis on group white matter skeleton generated by FSL TBSS. The script produces stable estimates of the white matter tract or tract segments that resemble highly correlated variation profiles across a group of subjects.

Proper citation: Microstructural correlation toolbox (RRID:SCR_002316) Copy   

•   Source: SciCrunch Registry
  

http://www.osti.gov/

The Office of Scientific and Technical Information's mission is to advance science and sustain technological creativity by making R&D findings available and useful to Department of Energy (DOE) researchers and the public. At OSTI you can find research results and science information from the Manhattan Project to the present, download documents, view energy citations, discover patents and e-prints, read about ongoing research projects and amazing accomplishments, search science conference proceedings and software, and connect to U.S. and global science portals. You can do this by using special online tools, such as: * Key Resources * DOE Science Accelerator * Science.gov * WorldWideScience.org Strategies for accomplishing the OSTI mission: * Collaborate within DOE through the Scientific and Technical Information Program to develop and maintain efficient, state-of-the-art access and delivery of research results. * Partner with others to facilitate alliances for national and international cooperation and information exchange. * Develop, deliver, and maintain customized information products and services for a variety of constituencies. * Implement Department-wide STI policy and best business practices. * Preserve STI, in tangible copies or electronically, as appropriate. * Accelerate the diffusion of knowledge to advance science. OSTI develops and maintains search tools that use a special technology called federated search. KEY RESOURCES Research Documents/Information Information Bridge Find DOE R&D full-text documents and bibliographic citations. DOE R&D Accomplishments Find information about the outcomes of past DOE R&D. DOE patents Find patents resulting from DOE-sponsored research and development. E-print Network Find e-prints in basic and applied sciences . Energy Citations Database (ECD) Find bibliographic records and full-text where available. Adopt-A-Doc? is an on-demand service that provides individuals the option to sponsor the digitization of full-text DOE technical reports. Science Conference Proceedings Find select science and technology conference papers and proceedings. EnergyFiles Find databases and websites of interest to DOE. Research Summaries DOE R&D Project Summaries Find R&D projects underway at DOE. Federal R&D Project Summaries Find R&D projects underway at federal agencies. Science Information from U.S. Agencies Science.gov Find selected science information provided by U.S. Government agencies. Science Information from Global Sources WorldWideScience.org Find science from participating nations of every inhabited continent. ETDEWEB Register for access to worldwide energy technology discoveries. International Nuclear Information System Find International bibliographic records related to peaceful applications of nuclear science and technology. Science Education Resources ScienceLab A portal listing numerous education resources within DOE and beyond Scientific Research Data About Scientific Research Data Learn about the Department of Energys data discovery tool as well as data centers, forums, and publications. DOE Data Explorer Find scientific research data - such as computer simulations, numeric data files, figures and plots, interactive maps, multimedia, and scientific images - generated in the course of DOE-sponsored research in various science disciplines. Scientific and Technical Software Energy Science and Technology Software Center Find federally funded scientific and technical software developed by the national laboratories, other facilities and DOE contractors. SCIENCE ACCELERATOR Science Accelerator is a gateway to science, including R&D results, project descriptions, accomplishments, and more, via resources made available by the Office of Scientific and Technical Information (OSTI), U.S. Department of Energy. Science Accelerator was developed and is made available by OSTI as a free public service. SCIENCE.GOV Science.gov searches over 40 databases and 1,950 selected websites, offering 200 million pages of authoritative U.S. government science information, including research and development results. WORLDWIDESCIENCE.ORG WorldWideScience.org is a global science gatewayaccelerating scientific discovery and progress through a multilateral partnership to enable federated searching of national and international scientific databases and portals.

Proper citation: Office of Scientific and Technical Information (RRID:SCR_002670) Copy   

•   Source: SciCrunch Registry
  

http://www.nitrc.org/projects/mias/

Software toolkit that provides the following libraries and functions on linux platform: # Multi-resolution registration of MR images include T1, multimodality, and DTI images. # The registration model is B-spline, and users can custermize their own image similarity measures by writing a plugin function and recompile the program.

Proper citation: MIAS Registration Toolkit (RRID:SCR_002312) Copy   

•   Source: SciCrunch Registry
  

https://github.com/lh3/ropebwt2

A software tool for constructing the FM-index for a collection of DNA sequences. It works by incrementally inserting one or multiple sequences into an existing pseudo-BWT position by position, starting from the end of the sequences. This algorithm can be largely considered a mixture of BCR and dynamic FM-index. Nonetheless, ropeBWT2 is unique in that it may implicitly sort the input into reverse lexicographical order (RLO) or reverse-complement lexicographical order (RCLO) while building the index.

Proper citation: RopeBWT2 (RRID:SCR_002673) Copy   

•   Source: SciCrunch Registry
  

http://www.x-ald.nl/

X-ALD database initiated July 1999 by Hugo W. Moser, M.D. and Stephan Kemp, Ph.D. The primary aims of the database are: to catalogue and facilitate the analysis of X-ALD mutations; to provide background information on X-ALD; to provide links to X-ALD patient organizations; and to help with contacting and finding (local) X-ALD health care professionals. The purpose of the X-linked adrenoleukodystrophy database is to provide general educational information about X-ALD.

Proper citation: X-linked Adrenoleukodystrophy Database (RRID:SCR_002548) Copy   

•   Source: SciCrunch Registry
  

http://www.pharmabase.org/

THIS RESOURCE IS NO LONGER IN SERVICE, documented August 25, 2015. Open content cheminformatics database linking physiology with pharmacology, it targets the action and use of pharmacological compounds in modifying protein function, while revealing molecular relationships and linking out to related databases and sites. Pharmabase has been developed as a research tool, a resource for students, and an ongoing interactive forum on the use of pharmacological compounds in cellular research. It has several navigational routes, including a graphics browser (shows graphics of cell types and pathways) and membrane transport, which also illustrates the diversity of mechanisms that are covered. Users have access to detailed compound records with interactive features, and a form to send comments to the editor. Investigators are encouraged to alert the editors to mistakes, omissions or new compound information available from their reading and research.

Proper citation: Pharmabase - an open content cheminformatics resource linking physiology with pharmacology (RRID:SCR_002462) Copy   

•   Source: SciCrunch Registry
  

http://www.nitrc.org/projects/wmls/

Segmentation tool that uses image analysis and machine learning techniques (Support Vector Machines). Image intensities from multiple MR acquisition protocols, after coregistration, are used to form a voxel-wise attribute vector which is used to perform the segmentation. Computer algorithms have started to complement expert-readings of MRI as they may improve throughput and consistency, in addition to providing more accurate quantitative measures of lesion type and volume. Computerized segmentation methods can also offer more precise measurements of longitudinal change of a lesion with disease progression or treatment response.

Proper citation: Brain lesion segmentation tool using SVM (RRID:SCR_002583) Copy   

•   Source: SciCrunch Registry
  

http://www.pstnet.com/hardware.cfm?ID=92

MRI Simulator that provides a realistic approximation of an actual MRI scanner to allow habituation and training of participants in an environment less daunting than a real scanner. Special populations such as children, the elderly, and psychiatric patients, are often prone to claustrophobia and anxiety in the bore of a magnet, and consequently have a much higher rate of terminating the experiment or scan session before its completion. Some centers that have dealt with these populations estimate a 50%-80% failure rate. With the use of the MRI Simulator this failure rate can often be reduced below 5%, improving cost effectiveness.

Proper citation: PSTNet: MRI Simulator (RRID:SCR_002460) Copy   

•   Source: SciCrunch Registry
  

http://www.bioconductor.org/packages/release/bioc/html/CAMERA.html

A Bioconductor package integrating algorithms to extract compound spectra, annotate isotope and adduct peaks, and propose the accurate compound mass even in highly complex data.

Proper citation: CAMERA - Collection of annotation related methods for mass spectrometry data (RRID:SCR_002466) Copy   

•   Source: SciCrunch Registry