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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | ||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Mastrave modelling library Resource Report Resource Website |
Mastrave modelling library (RRID:SCR_014399) | software library, software resource, software toolkit | 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 | SciCrunch Registry | Mastrave modeling library, Mastrave | 2026-11-07 11:58:09 | 0 | |||||||||
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Surveyor with Turboscan Resource Report Resource Website 1+ mentions |
Surveyor with Turboscan (RRID:SCR_014433) | data acquisition software, data processing software, image acquisition software, software application, 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 | SciCrunch Registry | 2026-11-07 11:57:50 | 5 | ||||||||||
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ReBuilding a Kidney Resource Report Resource Website 1+ mentions |
ReBuilding a Kidney (RRID:SCR_014442) | RBK | data or information resource, funding resource, organization portal, portal, resource | A consortium of research projects working to optimize approaches for the isolation, expansion, and differentiation of appropriate kidney cell types and their integration into complex structures that replicate human kidney function. Their goal is to coordinate and integrate research to support the development and implementation of strategies such as de novo repair of nephrons, the re-generation of nephrons, and the in vitro engineering of a biological kidney to enhance renal repair and promote the generation of new nephrons in the postnatal organ. Investigators may apply for funding of a kidney-related project through the RBK Partnership Project. Funded projects would join the consortium. | consortium, kidney, rebuild, kidney cell type, human, kidney function, nephron, engineer, renal repair | is listed by: NIDDK Information Network (dkNET) | NIDDK | PMID:28096308 | Available to the research community, Account needed to view data | SCR_014442 | SciCrunch Registry | (Re)Building a Kidney | 2026-11-07 11:57:50 | 3 | ||||||
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Ventana Image Viewer Resource Report Resource Website 1+ mentions |
Ventana Image Viewer (RRID:SCR_014446) | data processing software, image processing software, software application, software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on November 12,2024. A digital slide image software that is used with the VENTANA iScan Coreo Au slide scanner. This software helps facilitate viewing high quality images with little latency. The image view software can also support the viewing of multiple images simultaneously. | ventana, image software, ventana iscan coreo, hardware management software, image processing, digital slide image, slide scanner | THIS RESOURCE IS NO LONGER IN SERVICE | http://www.ventana.com/product/page?view=dpusecases | SCR_014446 | SciCrunch Registry | 2026-11-07 11:58:00 | 1 | ||||||||||
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ANY-maze Resource Report Resource Website 1000+ mentions |
ANY-maze (RRID:SCR_014289) | data acquisition software, data processing software, image acquisition software, software application, software resource | Video tracking system used to automate testing in a variety of behavioral apparatus. ANY-maze can automatically track the tail, head, or body of a test animal in up to 16 pieces of apparatus. The software can record live images or digital files with different camera types and save the data in multiple formats. ANY-maze contains built in statistical tests and standard measures for distance, speed, mobility, duration, etc., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | video tracking system, automated video tracking, behavioral apparatus, data acquisition software, record live image | is related to: IITC Life Sciences: Rotarod Test | THIS RESOURCE IS NO LONGER IN SERVICE | http://www.anymaze.co.uk/ | SCR_014289 | SciCrunch Registry | ANY-MAZE, ANY-Maze, any maze | 2026-11-07 11:57:49 | 1337 | ||||||||
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Definiens Developer XD Resource Report Resource Website 10+ mentions |
Definiens Developer XD (RRID:SCR_014283) | software resource | A development environment designed to create automated image analysis solutions for segmentation and classification tasks. It delivers quantitative and consistent data for any type of image (e.g., IHC, ISH, IF images in different formats). Developer XD also contains a large library of image analysis algorithms, which users can add to, for whole slide images and tissue microarrays (TMAs). It can be integrated with an existing Tissue Studio installation. | development environment, image analysis solution, segmentation, classification, image analysis algorithm library, tissue microarray, whole slide image, tissue studio | is listed by: SoftCite | SCR_014283 | SciCrunch Registry | 2026-11-07 11:57:58 | 11 | |||||||||||
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Seahorse Wave Resource Report Resource Website 100+ mentions |
Seahorse Wave (RRID:SCR_014526) | data analysis software, data management software, data processing software, software application, software resource | Software to manage Seahorse XFe24 Analyzer, which measures OCR and ECAR of live cells in a 24-well plate format. Users can create and modify assay templates and analyze and manage data. | hardware management software, seahorse, xf data analysis, live cells | has parent organization: Agilent Technologies | http://www.agilent.com/cs/pubimages/misc/User_Guide_Wave_Desktop_2-3.pdf | SCR_014526 | SciCrunch Registry | 2026-11-07 11:58:12 | 104 | ||||||||||
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pyLMM Resource Report Resource Website 10+ mentions |
pyLMM (RRID:SCR_014525) | data analysis software, data processing software, software application, software resource, standalone software | A Python package for doing linear mixed model associations in genome wide association studies (GWAS). The software corrects for population structure using EMMA. | python, data analysis software, linear mixed model, genome wide association studies, gwas, lmm, emma | DOI:10.1534/genetics.107.080101 | Install using pip | SCR_014525 | SciCrunch Registry | 2026-11-07 11:58:20 | 12 | ||||||||||
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ENIGMA-DTI Pipeline Resource Report Resource Website 50+ mentions |
ENIGMA-DTI Pipeline (RRID:SCR_014649) | protocol | Pipeline which provides tools to extract whole-brain average and regional measurements from DTI images including FA, AD, RD and MD. Protocols for preprocessing, ENIGMA-DTI processing (skeletonization and ROI extraction), and GWAS analysis are available. Software tools used for each process are listed within the protocols. | dti, enigma, protocol, pipeline |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: University of Southern California; Los Angeles; USA has parent organization: ENIGMA |
NIBIB U54 EB020403 | Available for download from NITRC | http://www.nitrc.org/projects/enigma_dti | SCR_014649 | SciCrunch Registry | ENIGMA-DTI protocol, ENIGMA DTI pipeline, ENIGMA DTI protocol | 2026-11-07 11:58:15 | 50 | |||||||
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VitalView Software Resource Report Resource Website 10+ mentions |
VitalView Software (RRID:SCR_014497) | data acquisition software, data analytics software, data processing software, software application, software resource | A data acquisition and analysis software program. The program collects data from sensors and receivers and displays graphical data analysis as well as descriptive statistics. | data acquisition, data analysis | PMID:12213503 | Commercial | SCR_014497 | SciCrunch Registry | 2026-11-07 11:58:11 | 16 | ||||||||||
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GUID Tool Resource Report Resource Website 1+ mentions |
GUID Tool (RRID:SCR_014530) | data access protocol, software resource, web service | A customized software application that generates a Global Unique Identifier for each study participant. The GUID is a universal subject ID that allows researchers to share data specific to a study participant without exposing personally identifiable information (PII). The GUID has been approved by the NIH Office of General Counsel. | web service, universal subject id | is hosted by: NIMH Data Archive | For use when collaborating and sharing information | SCR_014530 | SciCrunch Registry | 2026-11-07 11:58:01 | 3 | ||||||||||
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HIPPIE Resource Report Resource Website 100+ mentions |
HIPPIE (RRID:SCR_014651) | software resource, web application | Web tool used to generate confidence scored and functionally annotated human protein-protein interaction networks. Users can run a protein query using a UniProt identifier (ID or accession), gene symbol or Entrez gene id, or a network query using set fields. | web tool, web application, protein protein interaction, reference tool, protein query, network query, human protein protein interaction network | Helmholtz Alliance in Systems Biology ; BMBF 01GS08170 |
DOI:10.1371/journal.pone.0031826 | Available on the web, Available for download, Acknowledgement requested | SCR_014651 | SciCrunch Registry | Human Integrated Protein Protein Interaction Reference, Human Integrated Protein-Protein Interaction rEference, Human Integrated Protein-Protein Interaction rEference (HIPPIE) | 2026-11-07 11:58:03 | 142 | ||||||||
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LANDMark BioBanks Resource Report Resource Website 1+ mentions |
LANDMark BioBanks (RRID:SCR_014534) | biobank, biospecimen repository, data or information resource, data set, material storage repository, service resource, storage service resource | A repository of human tissue samples collected during the LANDMark study (Longitudinal Assessment of Neuropathy in Diabetes using novel ophthalmic markers). The LANDMark Biobank longitudinal dataset contains blood and tissue (skin) samples and matching detailed phenotypic data of three microvascluar complications of type 1 diabetes: neuropathy, nephropathy and retinopathy. | biospecimen repository, data set, type 1 diabetes, biobank, human tissue, landmark study, longitudinal data set, blood, skin, neuropathy, nephropathy, retinopathy | is listed by: NIDDK Information Network (dkNET) | Type 1 diabetes, Diabetes | Available to the research community, Apply to the Tissue Access Committee to access tissue samples | SCR_014534 | SciCrunch Registry | 2026-11-07 11:58:12 | 2 | |||||||||
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RepeatScout Resource Report Resource Website 500+ mentions |
RepeatScout (RRID:SCR_014653) | algorithm resource, data analysis software, data processing software, sequence analysis software, software application, software resource | Algorithm used to identify de novo repeat families in newly sequenced genomes. Repeat libraries for C. briggsae, M. muscles (X chromosome), R. novegicus (X chromosome), armadillo, H. sapiens (X chromosome), and various other mammals created using RepeatScout are available on the main site., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | algorithm, sequence analysis, repeat, genome sequence, de novo, repeat family, repeat library, bio.tools |
is used by: RepeatModeler is listed by: Debian is listed by: bio.tools has parent organization: University of California at San Diego; California; USA |
PMID:15961478 | THIS RESOURCE IS NO LONGER IN SERVICE | BioTools:RepeatScout, biotools:RepeatScout | https://bio.tools/RepeatScout, https://bio.tools/RepeatScout, https://bio.tools/RepeatScout | SCR_014653 | SciCrunch Registry | 2026-11-07 11:58:21 | 818 | |||||||
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Mercator Resource Report Resource Website 500+ mentions |
Mercator (RRID:SCR_014493) | data analysis software, data processing software, software application, software resource | A software package for quantification of histological sections. This software performs functions including: management and analysis of regions of interest, annotations, statistical analysis, and 3D visualization. These results are edited in an Excel-compatible spreadsheet. | histology analysis, image analysis, statistical analysis, 3d visualization, excel | Commercial | SCR_014493 | SciCrunch Registry | 2026-11-07 11:58:01 | 692 | |||||||||||
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ImageMagick Resource Report Resource Website 100+ mentions |
ImageMagick (RRID:SCR_014491) | data processing software, image processing software, software application, software resource | Software suite for creating, editing, composing, and converting bitmap images. It can read and write images in over 200 formats including PNG, JPEG, JPEG-2000, GIF, TIFF, DPX, EXR, WebP, Postscript, PDF, and SVG. The user can use this software to resize, flip, mirror, rotate, distort, shear and transform images, adjust image colors, apply various special effects, or draw text, lines, polygons, ellipses and Bézier curves. | image editing, image processing software, image analysis software, bitmap, adjust image colors, bezier curves | is listed by: Debian | Restricted | https://sources.debian.org/src/imagemagick/ | SCR_014491 | SciCrunch Registry | 2026-11-07 11:58:11 | 140 | |||||||||
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pubatlas.org Resource Report Resource Website 1+ mentions |
pubatlas.org (RRID:SCR_014538) | data processing software, data visualization software, software application, software resource | A program that searches PubMed to generate a heat map using a user's search terms. It also allows you to see over the years how many publications there are with the user's search term(s). | atlas, pubmed, heat map, search term, data visualization | PMID:21347177 | SCR_014538 | SciCrunch Registry | PubAtlas: Association Explorer, PubAtlas | 2026-11-07 11:58:01 | 4 | ||||||||||
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NIRStar Resource Report Resource Website 50+ mentions |
NIRStar (RRID:SCR_014540) | data acquisition software, data processing software, software application, software resource | Commercial software tool designed to function as a multiplatform instrument controlling environment for NIRx products. Its features include the ability to run full or partial sensing configurations, montage views and viewing options, and a real-time system status reporting display. | multiplatform, instrument controlling environment, investigational, paradigm, imaging system, data acquisition software | has parent organization: NIRx NIRS Neuroimaging | Commercially available | SCR_014540 | SciCrunch Registry | NIRStar - NIRS Acquisition Software by NIRx, NIRStar, NIRS Acquisition Software by NIRx | 2026-11-07 11:58:12 | 57 | |||||||||
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Preclinical Data Forum Network Resource Report Resource Website 1+ mentions |
Preclinical Data Forum Network (RRID:SCR_014545) | data or information resource, discussion, forum, narrative resource | A forum for preclinical data sharing and interpretation to enhance its utility for clinical research and development. The forum allows researchers to communicate and collaborate on modern preclinical issues and data sharing. | forum, network, preclinical, research and development, data sharing | has parent organization: ECNP | DOI:10.1016/j.euroneuro.2015.05.011 | Available to the research community | SCR_014545 | SciCrunch Registry | Preclinical Data Forum Network of the ECNP, Preclinical Data Forum Network of the European College of Neuropsychopharmacology, European College of Neuropsychopharmacology - Preclinical Data Forum Network | 2026-11-07 11:58:20 | 1 | ||||||||
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Cell Line Authentication Testing Resource Report Resource Website 1+ mentions |
Cell Line Authentication Testing (RRID:SCR_014504) | CLA | quality control testing; authentication testing | A material analysis service of the commercial organization Genetica DNA Laboratories which provides authentication of human cancer cell lines, stem cell lines and xenografts utilizing STR DNA technology. | str profiling, cell line authentication, genetica, cancer cell line, stem cell line, xenograft | is related to: Genetica DNA Laboratories | PMID:20614197 | Available to the research community, Commercial | SCR_014504 | SciCrunch Registry | Genetica DNA Laboratories Cell Line Authentication, cell line identification testing; cell authentication | 2026-11-07 11:57:51 | 4 |
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