Searching the RRID Resource Information Network
Are you sure you want to leave this community? Leaving the community will revoke any permissions you have been granted in this community.
SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to register your resource.
http://droog.gs.washington.edu/polyphred/
Software program that compares fluorescence-based sequences across traces obtained from different individuals to identify heterozygous sites for single nucleotide substitutions. Its functions are integrated with the use of three other programs: Phred (Brent Ewing and Phil Green), Phrap (Phil Green), and Consed (David Gordon and Phil Green). PolyPhred identifies potential heterozygotes using the base calls and peak information provided by Phred and the sequence alignments provided by Phrap. Potential heterozygotes identified by PolyPhred are marked for rapid inspection using the Consed tool.
Proper citation: PolyPhred (RRID:SCR_002337) Copy
http://www.ncrnadatabases.org/
Searchable portal for public non-coding RNA databases. The databases are classified by RNA family, information source, information content, and available search mechanisms.
Proper citation: NRDR (RRID:SCR_002458) Copy
http://www.brain.org.au/software/
A collection of tools that generate numerical fiber structures with the complexity of human white matter and simulate Diffusion-Weighted MR images that would arise from them. Its primary use is to enable the testing of tracking algorithms
Proper citation: Numerical Fibre Generator (RRID:SCR_002457) Copy
http://www.fh-stralsund.de/fh_stralsund/powerslave,id,224,nodeid,.html
Public university in Germany for vocational training in the applied sciences.
Proper citation: University of Applied Sciences; Mecklenburg-Vorpommern; Germany (RRID:SCR_002452) Copy
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.
Proper citation: NFT (RRID:SCR_002450) Copy
https://github.com/incf-nidash/XCEDE
Data management software that provides an extensive metadata hierarchy for describing and documenting research and clinical studies. The schema organizes information into five general hierarchical levels: a complete project, studies within a project, subjects involved in the studies, visits for each of the subjects, the full description of the subject's participation during each visit.
Proper citation: XCEDE Schema (RRID:SCR_002571) Copy
http://www.dpd.cdc.gov/dpdx/Default.htm
Parasite-related portal including concise reviews of parasites and parasitic diseases, an image library, a review of recommended procedures for collecting, shipping, processing, and examining biologic specimens, and a diagnostic assistance function, in which laboratorians and other health professionals desiring assistance in parasite identification can ask questions and/or send digital images of specimens for expedited review and consultation with DPD staff. This assistance is free of charge. The portal is hoped to strengthen diagnosis of, and enhance the capacity to address the global problem of parasitic diseases, both in the United States and abroad. Potential DPDx applications include: * training and continuing education of laboratorians, using material collected by CDC or contributed by other institutions * provision to health facilities worldwide of diagnostic assistance by CDC staff backed up when needed by experts from other institutions * diagnostic quizzes for self-assessment of laboratorians skills * informal, early detection of unusually clustered, atypical or emerging parasitic diseases
Proper citation: DPDx: Laboratory Identification of Parasites of Public Health Concern (RRID:SCR_002335) Copy
http://www.nitrc.org/projects/pyxnat/
Software Python library that relies on the REST API provided by the XNAT platform since its 1.4 version. XNAT is an extensible database for neuroimaging data. The main objective is to ease communications with an XNAT server to plug-in external tools or python scripts to process the data.
Proper citation: pyxnat (RRID:SCR_002574) Copy
http://cran.r-project.org/web/packages/isa2/
A biclustering algorithm that finds modules in an input matrix. A module or bicluster is a block of the reordered input matrix.
Proper citation: Iterative Signature Algorithm (RRID:SCR_002327) Copy
http://www.nitrc.org/projects/ncanda-datacore/
Manuals, training materials, and computational tools developed by the National Consortium on Alcohol and NeuroDevelopment in Adolescence (NCANDA) Data Component. The NCANDA consortium consists of an Administrative Component at UC San Diego, the Data Integration Component at SRI International, and five data collection sites, Duke University, Oregon Health & Sciences University, SRI International, University of Pittsburgh, and UC San Diego. Each collection site will collect data from about 150 adolescents, each of them seen for one baseline and three annual follow-up visits.
Proper citation: NCANDA: Data Integration Component (RRID:SCR_002447) Copy
http://www.controlled-trials.com
Free-to-view clinical trials register of clinical trials worldwide, it allows users to search, register and share information about randomized controlled trials. Publication services are also available via the range of open access peer-reviewed journals published by BioMed Central. Current Controlled Trials is run by an editorial and technical in-house team. It receives advice from an international Advisory Group, including academics, doctors and health care specialists of international renown. The Advisory Group provides valuable guidance on the current activities and possible new directions of Current Controlled Trials' two databases, the metaRegister of Controlled Trials (mRCT) and the International Standard Randomised Controlled Trial Number (ISRCTN) scheme.
Proper citation: Current Controlled Trials (RRID:SCR_002325) Copy
http://www.iso.org/iso/home.htm
An independent, non-governmental organization made up of members from the national standards bodies of 161 countries that develop and publish International Standards covering almost all aspects of technology and business. From food safety to computers, and agriculture to healthcare, ISO International Standards impact all our lives. The Central Secretariat in Geneva, Switzerland, coordinates the system. The standards are developed by the people that need them, through a consensus process. Experts from all over the world develop the standards that are required by their sector. This means they reflect a wealth of international experience and knowledge.
Proper citation: ISO (RRID:SCR_002363) Copy
A complete Python environment for the analysis of structural and functional neuroimaging data. It currently has a full system for general linear modeling of functional magnetic resonance imaging (fMRI).
Proper citation: NIPY (RRID:SCR_002489) Copy
http://en.wikipedia.org/wiki/Web_annotation#Comparison_of_web_annotation_systems
Wikipedia offers a comparison of web annotation systems. Many of these systems require software to be installed to enable some or all of the features. This fact is only noted in footnotes if the software that is required is additional software provided by a third party.
Proper citation: Comparison of web annotation systems (RRID:SCR_002366) Copy
A repository of information relative to the nomenclature of enzymes. It is primarily based on the recommendations of the Nomenclature Committee of the International Union of Biochemistry and Molecular Biology (IUBMB) and it describes each type of characterized enzyme for which an EC (Enzyme Commission) number has been provided. These include * EC number * Recommended name * Alternative names (if any) * Catalytic activity * Cofactors (if any) * Pointers to the Swiss-Prot protein sequence entry(ies) that correspond to the enzyme (if any) * Pointers to human disease(s) associated with a deficiency of the enzyme (if any) We believe that the ENZYME database can be useful to anybody working with enzymes and that it can be of help in the development of computer programs involved with the manipulation of metabolic pathways. Available services include downloading ENZYME by FTP as well as report forms for a new ENZYME entry or for an error/update in an existing entry.
Proper citation: ENZYME (RRID:SCR_002487) Copy
http://www.pstnet.com/hardware.cfm?ID=90
MRI Digital Projection System that uses Digital Light Processing (DLP) technology providing microsecond pixel rise times, outstanding contrast with all-digital fiber optic control that allows you to project crystal clear, sharp images. Includes: * High resolution (1024x768) DLP Projector with RF filtered enclosure, custom lens assembly, digital video (DVI) over fiber, high flow fans, internal thermal sensor * Control room device to perform DVI to Fiber conversion, remotely power down the projector, and allow use of projector remote control from control room * 30 meter fiber optic cable that runs between the projector and projector control station * Heavy duty, magnet compatible, projector stand (assembly required) * Heavy duty, magnet compatible mirror stand with mirror (assembly required) * High resolution, lenticular pitch rear projection screen for high quality image reproduction * Optional VGA to DVI converter (native DVI video cards on Windows or Macintosh recommended)
Proper citation: MRI Digital Projection System (RRID:SCR_002486) Copy
http://www.nitrc.org/projects/parser_4d/
A tool for analyzing 4D images with pathology. Originally developed for processing longitudinal images of patients with traumatic brain injury, the tool contains new image analysis algorithms that combine registration and segmentation in a coherent framework, accounting for extreme changes due to extensive tissue damage.
Proper citation: 4D-PARSeR Pathological Anatomy Regression via Segmentation and Registration (RRID:SCR_002480) Copy
https://www.genevestigator.com/gv/
A high performance search engine for gene expression that integrates thousands of manually curated public microarray and RNAseq experiments and nicely visualizes gene expression across different biological contexts (diseases, drugs, tissues, cancers, genotypes, etc.). There are two basic analysis approaches: # for a gene of interest, identify which conditions affect its expression. # for condition(s) of interest, identify which genes are specifically expressed in this/these conditions. Genevestigator builds on the deep integration of data, both at the level of data normalization and on the level of sample annotations. This deep integration allows scientists to ask new types of questions that cannot be addressed using conventional tools.
Proper citation: Genevestigator (RRID:SCR_002358) Copy
https://github.com/armintoepfer/haploclique
Software providing a computational approach to reconstruct the structure of a viral quasispecies from next-generation sequencing data as obtained from bulk sequencing of mixed virus samples.
Proper citation: HaploClique (RRID:SCR_002353) Copy
http://www.theneurohub.com.au/
Online aggregation portal of neuroscience research services that clients can use as a tool to contact, refer, and utilize such as medical services, neuropsychology assessments, and speech pathology.
Proper citation: NeuroHub: the information environment for Neuroscientists (RRID:SCR_002352) Copy
Can't find your Tool?
We recommend that you click next to the search bar to check some helpful tips on searches and refine your search firstly. Alternatively, please register your tool with the SciCrunch Registry by adding a little information to a web form, logging in will enable users to create a provisional RRID, but it not required to submit.
Welcome to the NIF Resources search. From here you can search through a compilation of resources used by NIF and see how data is organized within our community.
You are currently on the Community Resources tab looking through categories and sources that NIF has compiled. You can navigate through those categories from here or change to a different tab to execute your search through. Each tab gives a different perspective on data.
If you have an account on NIF then you can log in from here to get additional features in NIF such as Collections, Saved Searches, and managing Resources.
Here is the search term that is being executed, you can type in anything you want to search for. Some tips to help searching:
You can save any searches you perform for quick access to later from here.
We recognized your search term and included synonyms and inferred terms along side your term to help get the data you are looking for.
If you are logged into NIF you can add data records to your collections to create custom spreadsheets across multiple sources of data.
Here are the sources that were queried against in your search that you can investigate further.
Here are the categories present within NIF that you can filter your data on
Here are the subcategories present within this category that you can filter your data on
If you have any further questions please check out our FAQs Page to ask questions and see our tutorials. Click this button to view this tutorial again.
Welcome to the Neuroscience Information Framework Project, designed to serve the biomedical research community. NIF maintains the largest searchable collection of neuroscience data, the largest catalog of biomedical resources, and the largest ontology for neuroscience on the web. We welcome all feedback and suggestions and are actively looking for resource providers to make their resources accessible through NIF. Learn about the tools available to help you share your data and discover a dynamic inventory of Web-based neuroscience resources.
