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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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FMRIB's Automated Segmentation Tool Resource Report Resource Website 1+ mentions |
FMRIB's Automated Segmentation Tool (RRID:SCR_024920) | FAST | software resource, software application | Software tool to segment 3D image of brain into different tissue types like Grey Matter, White Matter, CSF, etc., whilst also correcting for spatial intensity variations also known as bias field or RF inhomogeneities. Used to perform tissue type segmentation and bias field correction. | Functional Magnetic Resonance Imaging of the Brain, segment 3D image of brain, segment 3D image, brain image, different tissue types, spatial intensity variations corrections, bias field, RF inhomogeneities, | is a plug in for: FSL | Free, Freely available | SCR_024920 | FAST:FMRIB's Automated Segmentation Tool, Functional Magnetic Resonance Imaging of the Brain's Automated Segmentation Tool | 2026-08-12 10:53:20 | 8 | ||||||||
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FNIRT Resource Report Resource Website 10+ mentions |
FNIRT (RRID:SCR_024923) | software resource, software application | Software tool to perform linear registration, meaning that it will translate, rotate, zoom and shear one image to match it with another. | perform linear registration, translate, rotate, zoom, shear, image, match image with another image, | is a plug in for: FSL | Free, Freely available | SCR_024923 | 2026-08-12 10:53:20 | 10 | ||||||||||
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SGAE Resource Report Resource Website 1+ mentions |
SGAE (RRID:SCR_024803) | software resource, software application | Software graph neural network based tool for spatial domain deciphering. Used for deciphering spatial domains from spatially resolved transcriptomics. | graph neural network, spatial domain deciphering, spatially resolved transcriptomics, | Free, Available for download, Freely available | SCR_024803 | Siamese Graph Autoencoder | 2026-08-12 10:53:11 | 1 | ||||||||||
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Enformer Resource Report Resource Website 10+ mentions |
Enformer (RRID:SCR_024805) | software resource, source code | Software package provides implementation of the Enformer model and examples on running the model. | implementation of Enformer model, examples on running the model, | Free, Available for download, Freely available | SCR_024805 | 2026-08-12 10:53:14 | 12 | |||||||||||
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SIENAX Resource Report Resource Website |
SIENAX (RRID:SCR_024926) | software resource, software application | Software tool to estimate total brain tissue volume, from single image, normalized for skull size. | estimate total brain tissue volume, single image, normalized for skull size, |
is related to: SIENA is a plug in for: FSL |
Free, Freely available | https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/SIENA/UserGuide#SIENAX_-_Single-Time-Point_Estimation | SCR_024926 | 2026-08-12 10:53:20 | 0 | |||||||||
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TF-Modisco Resource Report Resource Website 10+ mentions |
TF-Modisco (RRID:SCR_024811) | software resource, source code | Software application as algorithm for identifying motifs from basepair-level importance scores computed on genomic sequence data. | identifying motifs from basepair-level importance scores, genomic sequence data, | is related to: tfmodisco-lite | Free, Available for download, Freely available | SCR_024811 | TF MOtif Discovery from Importance SCOres, , Transcription-Factor Motif Discovery from Importance Scores | 2026-08-12 10:53:19 | 13 | |||||||||
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SciLifeLab Data Platform Resource Report Resource Website |
SciLifeLab Data Platform (RRID:SCR_024865) | data or information resource, database, knowledge base | Platform collates tools, databases, information, and other resources that can be useful to researchers and data producing facilities working in the area of data driven life science. Hub for data driven life science research in Sweden. | Sweden, collections of information, driven life science topic data, |
is related to: FAIRsharing is related to: Karolinska Institutet Adaptive Immune Receptor Gene Variant Atlas is related to: SciLifeLab Precision Medicine Portal |
Free, Freely available | https://fairsharing.org/5147 | SCR_024865 | 2026-08-12 10:53:19 | 0 | |||||||||
|
Qt Creator Resource Report Resource Website 1+ mentions |
Qt Creator (RRID:SCR_024883) | software resource, software application | Cross-platform, complete Integrated Development Environment for application developers to create applications for multiple desktop, embedded, and mobile device platforms, such as Android and iOS. It is available for Linux, macOS and Windows operating systems. In addition, you can use the experimental WebAssembly plugin to build applications in web format and run them in web browsers. | Qt Group, integrated development environment, cross-platform Qt IDE, cross-platform Qt Integrated Development Environment, application developers, create applications, | Restricted | https://www.qt.io/?search=Qt+Creator | SCR_024883 | 2026-08-12 10:53:13 | 2 | ||||||||||
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Arduino IDE Resource Report Resource Website 10+ mentions |
Arduino IDE (RRID:SCR_024884) | software resource, source code | Open-source physical computing platform based on I/O board and development environment that implements the Processing/Wiring language. Arduino can be used to develop stand-alone interactive objects or can be connected to software on your computer. | physical computing platform, develop stand-alone interactive objects, connected to software, | Free, Available for download, Freely available | https://www.arduino.cc/en/software, https://github.com/arduino/arduino-ide?tab=readme-ov-file, https://docs.arduino.cc/software/ide/#ide-v2 | SCR_024884 | , Arduino Integrated Development Environment, Arduino IDE 2.2., Arduino IDE 2.0, Arduino IDE 2.x, Arduino IDE 1.x | 2026-08-12 10:53:19 | 48 | |||||||||
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3DHISTECH SlideViewer Resource Report Resource Website 10+ mentions |
3DHISTECH SlideViewer (RRID:SCR_024885) | software resource, software application | Software tool for working with whole slide images. Digital microscope application for supporting histopathological diagnostic workflow and microscope examination process. Advanced slide viewing software used in clinical pathology and research. | 3DHISTECH Ltd, Digital microscope application, working with whole slide images, supporting histopathological diagnostic workflow, supporting microscope examination process, | Free, Available for download, Freely available | SCR_024885 | SlideViewer | 2026-08-12 10:53:15 | 16 | ||||||||||
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Multivariate Exploratory Linear Optimized Decomposition into Independent Components Resource Report Resource Website 10+ mentions |
Multivariate Exploratory Linear Optimized Decomposition into Independent Components (RRID:SCR_024916) | MELODIC | software resource, software application | Software tool to use at both the subject and group level to decompose FMRI data into time courses and spatial maps using Independent Component Analysis. Used to decompose single or multiple 4D data sets into different spatial and temporal components. | Independent Component Analysis, decompose FMRI data, decompose single or multiple 4D data sets, spatial and temporal components, | is a plug in for: FSL | Free, Freely available | SCR_024916 | MELODIC:Multivariate Exploratory Linear Optimized Decomposition into Independent Components | 2026-08-12 10:53:20 | 32 | ||||||||
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FABBER Resource Report Resource Website |
FABBER (RRID:SCR_024917) | software resource, software application | Software command-line tool for approximate Bayesian inference using generative signal models. | command-line tool, approximate Bayesian inference, generative signal models, | is a plug in for: FSL | Free, Freely available, | SCR_024917 | 2026-08-12 10:53:15 | 0 | ||||||||||
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VERBENA Resource Report Resource Website |
VERBENA (RRID:SCR_024919) | software resource, software application | Software tool for quantification of perfusion and other haemodynamic parameters from Dynamic Susceptibility Contrast perfusion MRI of the brain. | Dynamic Susceptibility Contrast, quantification of perfusion, haemodynamic parameters, Dynamic Susceptibility Contrast perfusion MRI, brain | is a plug in for: FSL | Free, Freely available | SCR_024919 | VERBENA:Vascular Model Based Perfusion Quantification for DSC-MRI | 2026-08-12 10:53:14 | 0 | |||||||||
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PS:Power and Sample Size Calculation Resource Report Resource Website 10+ mentions |
PS:Power and Sample Size Calculation (RRID:SCR_024912) | PS | software resource, software application | Software application as interactive program for performing power and sample size calculations. Can determine the sample size needed to detect specified alternative hypothesis with required power, the power with which specific alternative hypothesis can be detected with given sample size, or the specific alternative hypotheses that can be detected with given power and sample size. | interactive program for performing power and sample size calculations, power and sample size calculations, | PMID:9875838 | Free, Available for download, Freely available | SCR_024912 | 2026-08-12 10:53:20 | 16 | |||||||||
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Social Deprivation Index Resource Report Resource Website 10+ mentions |
Social Deprivation Index (RRID:SCR_025026) | SDI | data or information resource, portal | SDI is composite measure of area level deprivation based on seven demographic characteristics collected in the American Community Survey and used to quantify the socio-economic variation in health outcomes. | American Community Survey, demographic characteristics, quantify socio-economic variation in health outcomes, | Free, Freely available | SCR_025026 | 2026-08-12 10:53:22 | 14 | ||||||||||
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moseq2-app Resource Report Resource Website |
moseq2-app (RRID:SCR_025031) | software resource, source code | Software application as starting point to MoSeq2 package suite. Unsupervised machine learning method which takes inputs from depth cameras in 3D and transforms them into different behavioral motifs which called syllables. Used to extract mouse pose from depth video and model how pose evolves over time. | OpenBehavior, Motion Sequencing, describe mouse behavior, depth camera, extract mouse pose, extract mouse pose from depth video, depth video, pose evolve over time, | has parent organization: Harvard University; Cambridge; United States | Free, Available for download, Freely available | SCR_025031 | MoSeq2 Jupyter Notebook platform, moseq2-app | 2026-08-12 10:53:22 | 0 | |||||||||
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BayCEST Resource Report Resource Website |
BayCEST (RRID:SCR_024951) | software resource, software application | Software tool for Bayesian analysis for chemical exchange saturation transfer z-spectra. | Bayesian analysis, chemical exchange saturation transfer, z-spectra, | is listed by: FSL | Free, Freely available | SCR_024951 | Bayesian Chemical Exchange Saturation Transfer | 2026-08-12 10:53:15 | 0 | |||||||||
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PMI Resource Report Resource Website 1+ mentions |
PMI (RRID:SCR_025084) | software resource, source code | Software tool to support translation of basic research in medical image analysis into early clinical studies. | medical image analysis, clinical studies, | Free, Available for download, Freely available | https://github.com/plaresmedima/PMI-0.4 | SCR_025084 | PMI 0.4, Platform for Research in Medical Imaging | 2026-08-12 10:53:19 | 1 | |||||||||
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Fslutils Resource Report Resource Website 1+ mentions |
Fslutils (RRID:SCR_024943) | data processing software, software resource, software application | Software application set of useful command line utilities which allow conversion, processing etc. of Analyze and Nifti format data sets. | FSL, conversion, processing, Analyze format data sets, Nifti format data sets, | is a plug in for: FSL | Free, Freely available, | SCR_024943 | FSLUTILS | 2026-08-12 10:53:21 | 7 | |||||||||
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Atlasquery Resource Report Resource Website 1+ mentions |
Atlasquery (RRID:SCR_024944) | software resource, software application | Software tool designed to allow command line interrogation of atlas images supplied with FSL. It takes as input the name of one of FSL atlases together with either coordinate of interest or mask. | FSL, atlas images, command line interrogation, FSL atlases, | is a plug in for: FSL | Free, Freely available | SCR_024944 | 2026-08-12 10:53:16 | 1 |
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