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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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BD CellQuest Pro Resource Report Resource Website 1000+ mentions |
BD CellQuest Pro (RRID:SCR_014489) | data acquisition software, data processing software, software resource, software application | A software for acquiring and analyzing flow cytometry data. The user can create plots with elements like regions, gates, statistics, markers, and annotated text. The software can also be used for batch analysis or quality control of analysis. Results can be exported and saved., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | data analysis, flow cytometry data acquisition and analysis | THIS RESOURCE IS NO LONGER IN SERVICE | SCR_014489 | 2026-08-13 09:29:03 | 3939 | |||||||||||
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BayesTraits Resource Report Resource Website 100+ mentions |
BayesTraits (RRID:SCR_014487) | data analysis software, data processing software, software resource, software application | A computer package for performing analyses of trait evolution among groups of species for which a phylogeny or sample of phylogenies is available. It incorporates earlier programs including Multistate, Discrete and Continuous. BayesTraits can be applied to the analysis of traits that adopt a discrete number of states, or to the analysis of continuously varying traits. Hypotheses can be tested about models of evolution, ancestral states and correlations among pairs of traits., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | data analysis software, evolution, phylogeny, evolutionary model | THIS RESOURCE IS NO LONGER IN SERVICE | SCR_014487 | 2026-08-13 09:29:11 | 308 | |||||||||||
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Clone Manager Software Resource Report Resource Website 10+ mentions |
Clone Manager Software (RRID:SCR_014521) | data processing software, simulation software, software application, workflow software, software resource | A software system to assist with cloning simulation, enzyme operations, and graphic map drawing. Clone Manager can also be used as a way to view or edit sequence files, find open reading frames, translate genes, or find genes or text in files. Clone Manager Professional is an upgraded version of Clone Manager Basic., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | workflow software, simulation software, enzyme, clone, cloning simulation, graphic map, sequence, view, edit | THIS RESOURCE IS NO LONGER IN SERVICE | SCR_014521 | 2026-08-13 09:29:12 | 49 | |||||||||||
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Free Pascal Compiler Resource Report Resource Website 10+ mentions |
Free Pascal Compiler (RRID:SCR_014360) | FPC, FPK | software development environment, software resource, software development tool, software application | Free Pascal is a 32, 64 and 16 bit professional Object Pascal compiler targeting multiple processor architectures and operating systems. Documentation, including guides and manuals, are available on the website. | software development environment, software development tool, compiler, pascal, object pascal |
is used by: CyberUnits is used by: SimulAdren is related to: Lazarus IDE |
Free for download as source code, Pre-compiled for multiple platforms | SCR_014360 | 2026-08-13 09:29:02 | 21 | |||||||||
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Clickjoint Resource Report Resource Website 1+ mentions |
Clickjoint (RRID:SCR_014482) | data analysis software, data processing software, software resource, software application | A software for analyzing animal movement on videos and images. The user can define the animal's joints so the software can analyze using a tracking algorithm. | image analysis, tracking algorithm, animal movement, animal joint | SCR_014482 | 2026-08-13 09:29:02 | 3 | ||||||||||||
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NIS-Elements Resource Report Resource Website 1000+ mentions Rating or validation data |
NIS-Elements (RRID:SCR_014329) | data analysis software, data processing software, software application, software toolkit, software resource | Microscope imaging software suite used with Nikon products. NIS-Elements includes software applications for advanced and standard research, documentation, confocal microscopy, and high-content analysis., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | element, microscope imaging software, software suite, nikon |
is listed by: SoftCite works with: Nikon: ECLIPSE Ti2 inverted microscope |
THIS RESOURCE IS NO LONGER IN SERVICE | SCR_014329 | Nikon Instruments Software Elements, NIS Elements, Nikon Instruments Software | 2026-08-13 09:29:00 | 3515 | |||||||||
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IMAGIC Resource Report Resource Website 100+ mentions |
IMAGIC (RRID:SCR_014447) | data processing software, software application, image analysis software, software resource, image processing software | An image analysis software that can process spectra and other multi-dimensional data-sets. The software package is aimed at processing large data sets from (cryo-) electron microscopy, especially in the field of single particle analyses. This software can be used with light and raster-tunneling microscopes, computer tomographs, FT-IR spectrometers and other signal collecting devices. This resource provides three-dimensional data processing and angular reconstitution modules that allow the three-dimensional reconstruction with point-group symmetry from the two dimensional electron microscopy projections. These models aid in the analysis of the macromolecules. | image analysis, spectra, multi-dimensional data, macromolecule, 3d processing, tomograph, spectrometer, software environment | is listed by: SoftCite | PMID:8742718 | Commercial, Account needed for download | SCR_014447 | 2026-08-13 09:29:02 | 217 | |||||||||
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AMT Image Capture Software Resource Report Resource Website 1+ mentions |
AMT Image Capture Software (RRID:SCR_014333) | data processing software, software application, image analysis software, image acquisition software, data acquisition software, software resource, image processing software | AMT camera system software that performs digital image acquisition, processing, and storage. An operations manual and software specifications are available on the main site. | camera operating software, system management software, digital image acquisition, digital image processing, digital image storage | Only for AMT camera systems | SCR_014333 | 2026-08-13 09:29:02 | 5 | |||||||||||
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Macrogen Resource Report Resource Website 5000+ mentions |
Macrogen (RRID:SCR_014454) | biomaterial analysis service, material analysis service, analysis service resource, production service resource, service resource | A company that provides a variety of next generation sequencing services. The company provides researchers with whole genome resequencing, exome sequencing, targeted sequencing, transcriptomics, and epigenome sequencing. | sequencing assay, sequencing analysis software, next generation sequencing | is affiliated with: Axeq Technologies | Commercial entity | SCR_014454 | Macrogen Inc. | 2026-08-13 09:29:02 | 6322 | |||||||||
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SCRATCH Resource Report Resource Website 100+ mentions |
SCRATCH (RRID:SCR_014291) | data access protocol, analysis service resource, production service resource, service resource, web service, software resource | Web protein structure and structural feature prediction server.Software suite includes predictors for secondary structure, relative solvent accessibility, disordered regions, domains, disulfide bridges, single mutation stability, residue contacts versus average, individual residue contacts and tertiary structure. User provides amino acid sequence and selects desired predictions, then submits to the server. | Protein predictor, secondary structure, relative solvent accessibility, disordered regions, domains, disulfide bridges, single mutation stability, residue contacts versus average, individual residue contacts, tertiary structure prediction, bio.tools |
is listed by: Debian is listed by: bio.tools |
PMID:15980571 | Free, Freely available | biotools:scratch | https://bio.tools/scratch | http://www.igb.uci.edu/servers/psss.html | SCR_014291 | Scratch Protein Predictor | 2026-08-13 09:29:09 | 141 | |||||
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Biobserve Viewer Resource Report Resource Website 10+ mentions |
Biobserve Viewer (RRID:SCR_014337) | data analysis software, data processing software, software application, data acquisition software, software resource | Software that provides subject tracking with body axis alignment and angle of view, which is then used to track body, nose and tail movements without marking the animal. Users may create the scoring system used by the software, as well as zones to observe, quantify, and compare the behavior of an animal in one or more areas. The software features several data acquisition and analysis tools to gather and interpret the data. | mouse, animal tracking, behavior, data acquisition software, data analysis software | Pay for product | SCR_014337 | Bio Observe Viewer | 2026-08-13 09:29:02 | 12 | ||||||||||
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Andor iQ Resource Report Resource Website 100+ mentions |
Andor iQ (RRID:SCR_014461) | data processing software, software application, image analysis software, software resource, image processing software | A live cell imaging software that allows for control of iXon EMCCD and sCMOS cameras in synchronized combination with a number of additional imaging hardware devices. iQ can be used to run experiments to investigate dynamic processes in both single cells and multicellular systems, image fixed samples, and generate 3 dimensional image volumes for analysis. | image acquisition and analysis, iXon, sCMOS, EMCCD, live cell, 3d image | Public | SCR_014461 | 2026-08-13 09:29:11 | 255 | |||||||||||
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ClinProTools Resource Report Resource Website 100+ mentions |
ClinProTools (RRID:SCR_014341) | data analysis software, data processing software, software application, data acquisition software, software resource | Biomarker detection and evaluation software which provides an advanced basis for mining unknown potential biomarkers in complex protein profiles. Visualization tools such as stack plots and box-and-whiskers plots can be used to interactively inspect and compare large data sets originating from samples that contain different clinical diagnoses. ClinProTools also supplies sophisticated mathematical algorithms for the discovery of complex biomarker pattern models. Besides validation, class-prediction tools are also integrated to allow the implementation of the whole biomarker detection and evaluation process. | biomarker detection, biomarker evaluation, mining, visualization tools, large data set, biomarker pattern model | Pay for product | SCR_014341 | 2026-08-13 09:29:00 | 274 | |||||||||||
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ScanImage Resource Report Resource Website 500+ mentions |
ScanImage (RRID:SCR_014307) | data processing software, software application, signal processing software, data acquisition software, software resource | Open source software application for laser scanning microscopy, electrophysiology, laser scanning photostimulation, and other physiological methods focused on neurobiology. Used to control laser scanning microscopes without need for custom data acquisition hardware. Standard data acquisition boards are used to acquire data and control laser scanning. The tasks of signal integration and image processing are placed on the computer CPU. Multiple versions of ScanImage are available, each with their own features. | Laser, scanning, microscopy, electrophysiology, photostimulation, neurobiology, control, data, acquisition, BRAIN Initiative |
is recommended by: BRAIN Initiative has parent organization: Cold Spring Harbor Laboratory has parent organization: Northwestern University; Illinois; USA |
PMID:12801419 | Restricted | http://scanimage.vidriotechnologies.com/display/SIH/ScanImage+Home | SCR_014307 | Scan Image, ScanImage | 2026-08-13 09:28:59 | 876 | |||||||
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TurboReg Resource Report Resource Website 50+ mentions |
TurboReg (RRID:SCR_014308) | image processing software, data processing software, software resource, software application | An ImageJ plugin for the automatic alignment of a source image (or a stack) to a target image. Manual, automatic, and batch alignment modes are available. Users may specify some landmarks to establish the initial correspondence between images. In automatic and batch modes, the landmarks are automatically refined to match the landmarks of the target image. After registration, the plugin creates a warped image using the final position of the source image and the target landmarks. The plugin can be called by a macro or by another plugin. Technical guidance is available on the website. | image processing software, imagej, plugin, image alignment, automatic alignment, landmark | has parent organization: Ecole Polytechnique Federale de Lausanne; Lausanne; Switzerland | PMID:18267377 | Available for download, Freely available for research purposes, Acknowledgement requested | SCR_014308 | 2026-08-13 09:29:02 | 83 | |||||||||
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FreezeFrame Resource Report Resource Website 500+ mentions |
FreezeFrame (RRID:SCR_014429) | data acquisition software, data processing software, software resource, software application | A video-based system to detect animal movement in fear conditioning experiments, as well as movements in learned helplessness experiments. FreezeFrame can detect animal movements (as small as 1mm) and actions, including grooming, sniffing, turning, and rearing. It can also collect and process data for learned helplessness experiments, such as Tail Suspension and the Porsolt Forced Swim Test. This software can monitor animals for up to 15 times per second. | learned helplessness, fear conditioning, animal, movement, video system | is related to: Limelight | Public, Commercial | SCR_014429 | FreezeView | 2026-08-13 09:29:11 | 508 | |||||||||
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AnimalTracker Resource Report Resource Website 10+ mentions |
AnimalTracker (RRID:SCR_014397) | data analysis software, data processing software, software resource, software application | A universal tracking application specifically designed to support animal behavioral analysis. AnimalTracker consists of three main modules which can be used independently: Tracker is responsible for image processing and providing the coordinates of the identified object; Zone Designer provides tools to create custom-made investigation areas in order to design a maze-setup; and Tracking Analyzer module serves to define and obtain the parameters needed for the evaluation. | animal, tracking system, universal, animal behavior, analysis | Hungarian Brain Research Program | Acknowledgment required, Available for download, Open source | SCR_014397 | Animal Tracker | 2026-08-13 09:29:02 | 22 | |||||||||
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Mastrave modelling library Resource Report Resource Website |
Mastrave modelling library (RRID:SCR_014399) | software toolkit, software resource, software library | A software library written to perform vectorized scientific computing and oriented to ease complex modelling tasks such as those typically needed within environmental models, even when involving irregular and heterogeneous data series. The Mastrave project attempts to allow a more effective, quick interoperability between GNU Octave and Matlab users by using a well documented wrap around the main incompatibilities between those computing environments and by promoting a general idiom based on their common, stable syntagms. | free software, array programming, semantics, mathematics, statistics, semantic array programming, library, environmental modelling, environmental modeling |
is related to: GNU Octave is related to: MATLAB |
Free, Available for download | SCR_014399 | Mastrave modeling library, Mastrave | 2026-08-13 09:29:01 | 0 | |||||||||
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AcqKnowledge Software Resource Report Resource Website 100+ mentions |
AcqKnowledge Software (RRID:SCR_014279) | data analysis software, data processing software, simulation software, software application, data acquisition software, software resource | A software program that allows the user to perform data acquistion, stimulation and analyses. Users do not need to know the programming language or a new protocol view. AcqKnowledge Software is compatible with MP150 Research Systems, MP36R Research Systems, and MRI and fMRI Setups. A variety of offline and online analysis tools allows users to customize data recordings and targeted analyses. The software can perform automated analysis routines, output a range of stimulus paradigms, and allows users to record from multiple hardware devices simultaneously. | data acquisition software, simulation software, data analysis software, record data, target analysis, automation, stimulus paradigm | has parent organization: Biopac Systems Inc | SCR_014279 | 2026-08-13 09:28:59 | 257 | |||||||||||
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Surveyor with Turboscan Resource Report Resource Website 1+ mentions |
Surveyor with Turboscan (RRID:SCR_014433) | data processing software, software application, image acquisition software, data acquisition software, software resource | Automated scanning software used in conjunction with the Leica DM6000B microscope to obtain whole-slide image mosaics of histological slides. When performing a scan, Turboscan or the standard scan may be used. | scan, data acquisition software, hardware management software, microscope software, image mosaic, histological slide | Freely available online | http://www.objectiveimaging.com/download/files/Surveyor%20User%20Guide.pdf | SCR_014433 | 2026-08-13 09:29:01 | 5 |
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