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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Lifebit Deploit Resource Report Resource Website 1+ mentions |
Lifebit Deploit (RRID:SCR_016428) | production service resource, data management software, data analysis service, software application, software resource, service resource, analysis service resource | Platform for computing management for data analysis on the cloud from the Lifebit company. Allows the computational analyses to be permanently linked to live analyses pipelines. | Lifebit, compute, management, data, analysis, cloud, integrate, data, reproduce, transparent, bio.tools |
is listed by: Debian is listed by: bio.tools |
PMID:28398311 | Commercially available | biotools:nextflow | https://bio.tools/nextflow | SCR_016428 | 2026-08-14 09:27:42 | 2 | |||||||
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Ximmer Resource Report Resource Website 1+ mentions |
Ximmer (RRID:SCR_016427) | simulation software, data processing software, software application, data analysis software, software resource, data visualization software | Software to help users of targeted high throughput genomic sequencing data to accurately detect copy number variants (CNVs). Framework for running and evaluating other copy number detection tools.Used for evaluating and improving performance of CNV detection in exome and targeted sequencing data. | cnv, copy, number, variant, exome, targeted, sequencing, data, next, generation, genomic | is listed by: OMICtools | National Human Genome Research Institute ; National Eye Institute ; National Heart Lung and Blood Institute ; Australian National Health and Medical Research Council ; Victorian State Government |
DOI:10.1101/260927 | Open source, Free, Available for download, Freely available | https://omictools.com/ximmer-tool, http://ximmer.org | SCR_016427 | 2026-08-14 09:27:24 | 4 | |||||||
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Canadian Open Neuroscience Platform Resource Report Resource Website 10+ mentions |
Canadian Open Neuroscience Platform (RRID:SCR_016433) | CONP | data repository, storage service resource, portal, data or information resource, service resource, organization portal | Web interface that facilitates open science for neuroscience community by simplifying global access to and sharing of datasets and tools. Portal internalizes typical data cycle of research project, beginning with data acquisition, followed by data processing with published tools, and ultimately publication of results with link to original dataset. Platform to form interactive network of collaborations in brain research, interdisciplinary student training, international partnerships, clinical translation and open publishing. Provides unified interface to Canadian neuroscience research community. Open neuroscience research with sharing of both data and methods, to create large-scale databases, development of standards for sharing, facilitation of advanced analytic strategies, open dissemination to global community of neuroscience data and methods, and establishment of training programs for next generation of computational neuroscience researchers. | interactive, network, brain, research, interdisciplinary, student, training, international, partnership, clinical, translation, open, publishing, Canada |
is related to: Brain Canada is related to: Health Canada |
Open source | r3d100013461 | https://github.com/CONP-PCNO/conp-portal, https://doi.org/10.17616/R31NJMVP | SCR_016433 | CONP:Canadian Open Neuroscience Platform | 2026-08-14 09:27:43 | 11 | ||||||
|
GOTrack Resource Report Resource Website 1+ mentions |
GOTrack (RRID:SCR_016399) | database, web service, data or information resource, data access protocol, software resource | Open source web-based system and database that provides access to historical records and trends in the Gene Ontology (GO) and GO annotations (GOA). Used for monitoring changes in the Gene Ontology and their impact on genomic data analysis. | database, system, access, historical, monitor, record, gene, genomic, data, analysis, ontology, annotation, bioinformatics |
is listed by: OMICtools is related to: University of British Columbia; British Columbia; Canada |
NIH MH111099; NSERC Discovery Grant ; Canadian Foundation for Innovation infrastructure ; CIHR |
DOI:10.1101/320861 | Free, Available for download, Freely available | https://github.com/PavlidisLab/gotrack, https://omictools.com/gotrack-tool | SCR_016399 | 2026-08-14 09:27:24 | 1 | |||||||
|
FCS Express Resource Report Resource Website 500+ mentions |
FCS Express (RRID:SCR_016431) | data processing software, software application, data analysis software, software resource | Software tool for flow and image cytometry data analysis by De Novo Software company. | flow, image, analysis, data, cytometry, De Novo Software, research, clinical, laboratory | is listed by: SoftCite | Commercially available, Tutorial available | SCR_016431 | 2026-08-14 09:27:24 | 518 | ||||||||||
|
iMITS Resource Report Resource Website |
iMITS (RRID:SCR_016552) | iMITS | data or information resource, catalog, database | This resource has been replaced by GenTaR. Software tool for the planning of all IMPC mouse production. Allows IMPC production centers to record the progress of mouse production, cre-excision and to summarise the progress of phenotype data collection and transfer to the IMPC DCC. Stores all the mutation molecular structures made for the IKMC, catalogs of all IKMC products. | international, tracking, system, mouse, production, data, store, catalog, phenotype, collection, mutation, molecular, structure, IKMC, IMPC |
is affiliated with: International Mouse Phenotyping Consortium (IMPC) is related to: GenTaR |
NIH KOMP2; European Union 223592 |
Restricted | SCR_016552 | international Micro Injection Tracking System | 2026-08-14 09:27:45 | 0 | |||||||
|
Frozen Noise Resource Report Resource Website 1+ mentions |
Frozen Noise (RRID:SCR_016558) | software toolkit, data processing software, software application, data analysis software, software resource | Software analysis tools for electrophysiological somatosensory cortex databank. Allows to estimate the information content of spiking in single neuron resolution. It accompanies the open source intracellular recording database by Lantyer and colleagues. | electrophysiological, somatosensory, cortex, estimate, spiking, single, neuron, resolution | is related to: MATLAB | Free, Available for download, Freely available | SCR_016558 | 2026-08-14 09:27:35 | 4 | ||||||||||
|
Suite2P Resource Report Resource Website 50+ mentions |
Suite2P (RRID:SCR_016434) | software toolkit, image processing software, data processing software, software application, data analysis software, software resource | Software package for processing two-photon recordings. Available together with a graphical user interface that allows manual curation of the results. Used in two-photon microscopy for the analysis of data from two-photon imaging. Registers raw movies, detects active cells, extracts their calcium traces and infers their spike times. | two, photon, microscopy, processing, image, data, record |
is related to: MATLAB has parent organization: University College London; London; United Kingdom |
Free, Available for download, Freely available | SCR_016434 | 2026-08-14 09:27:34 | 84 | ||||||||||
|
User Friendly Functional Connectivity - UF²C Resource Report Resource Website 1+ mentions |
User Friendly Functional Connectivity - UF²C (RRID:SCR_016550) | UF²C | software toolkit, image analysis software, data processing software, software application, data analysis software, software resource | Software tool to standardize and facilitate connectivity studies through a graphical user interface and validated preset parameters. | standardize, functional, connectivity, brain, magnetic, resonance, imaging, graphical, user, interface, parameter |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: MATLAB |
FAPESP | Free, Available for download, Freely available | SCR_016550 | User Friendly Functional Connectivity | 2026-08-14 09:27:26 | 1 | |||||||
|
Vensim Resource Report Resource Website 10+ mentions |
Vensim (RRID:SCR_016394) | software application, simulation software, software resource | Simulation software for improving the performance of real systems. Used for developing, analyzing, and packaging dynamic feedback models. | performance, system, Ventana Systems Inc, model, modelling, analysis | Commercially available, Available for purchase | SCR_016394 | 2026-08-14 09:27:24 | 14 | |||||||||||
|
AngioTool Resource Report Resource Website 50+ mentions |
AngioTool (RRID:SCR_016393) | data processing software, software application, data analysis software, software resource | Software that performs quantitative analysis of angiogenesis. It specializes in quantitative assessment of various vessel morphometric and spatial parameters, including vessel length and density, branching index, lacunarity, etc. | vessel, angio, angiogenesis, characteristic, morphology | Biotechnology and Biological Sciences Research Council BB/C520712; MRC G0700740 |
PMID:22110636 | Open source, Free, Available for download | https://www.researchgate.net/publication/51824175_A_Computational_Tool_for_Quantitative_Analysis_of_Vascular_Networks | SCR_016393 | 2026-08-14 09:27:34 | 60 | ||||||||
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Sleep Heart Health Study Resource Report Resource Website 50+ mentions |
Sleep Heart Health Study (RRID:SCR_016559) | SHHS | data or information resource, portal, disease-related portal, topical portal | Portal for a multi-cohort study focused on sleep-disordered breathing and cardiovascular outcomes implemented by the National Heart Lung and Blood Institute. Recorded signals are: EEG, ECG, EOG, SaO2, HR, EOG, EMG, respiratory inductance plethysmography, respiration (thermistor), position, light. | dataset, analysis, sleep, apnea, breathing, disorder, cardiovascular, disease, EEG, ECG, respiration, PSG | is listed by: National Sleep Research Resource (NSRR) | sleep disorder, sleep apnea, cardiovascular disease | NHLBI U01 HL53916; NHLBI U01 HL53931; NHLBI U01 HL53934; NHLBI U01 HL53937; NHLBI U01 HL64360; NHLBI U01 HL53938; NHLBI U01 HL53941 |
PMID:9493915 | Free, Freely available, Registration required for membership | SCR_016559 | Sleep Heart Health Study | 2026-08-14 09:27:26 | 84 | |||||
|
Praat Resource Report Resource Website 100+ mentions |
Praat (RRID:SCR_016564) | data processing software, software application, data analysis software, software resource | Software tool for phonetics research to analyse, synthesize, and manipulate speech. | phonetics, analyse, systhetize, speech | Free, Available for download, Freely available, Tutorial available | http://www.praat.org, https://github.com/praat/praat/blob/master/fon/manual_tutorials.cpp | SCR_016564 | 2026-08-14 09:27:35 | 123 | ||||||||||
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SINCERA Pipeline Resource Report Resource Website 1+ mentions |
SINCERA Pipeline (RRID:SCR_016563) | SINCERA | data processing software, software application, data analysis software, data analytics software, software resource | Software tool implemented in R S4 as an analytic pipeline for processing single-cell RNA-seq data from a whole organ or sorted cells. Used for Single Cell RNA-Seq profiling analysis. | single, cell, RNA seq, data, sorted, whole, organ, profiling, analysis | NHLBI U01 HL110964; NHLBI U01 HL122642; NHLBI R01 HL105433 |
PMID:26600239 | Free, Available for download, Freely available | https://research.cchmc.org/pbge/sincera.html | SCR_016563 | SINCERA, SINgle CEll RNA seq profiling Analysis | 2026-08-14 09:27:46 | 5 | ||||||
|
Docker Desktop Resource Report Resource Website 10+ mentions |
Docker Desktop (RRID:SCR_016445) | DD | software application, software development environment, software development tool, software resource | Software development environment that helps users build containerized software using Docker and Kubernetes softwares. It is executable on desktop and cloud, and allows access to a vast library of community containerized content in Docker Hub. | software, container, build, code, coding, containerize, develop, development, environment, application | Free, Commercially available, Requires account to download, Available for download | SCR_016445 | Docker, DockerDesktop | 2026-08-14 09:27:24 | 26 | |||||||||
|
Microscopy Image Browser Resource Report Resource Website 100+ mentions |
Microscopy Image Browser (RRID:SCR_016560) | MIB | standalone software, image processing software, data processing software, software application, data analysis software, software resource, data visualization software | Software package for advanced image processing, analysis, segmentation and visualization of multi-dimensional (2D-4D) light and electron microscopy datasets. | segmentation, analysis, multidimentional, dataset, light, electron, microscopy, image, processing, visualization, data, bio.tools |
is listed by: Debian is listed by: bio.tools is related to: MATLAB |
Biocenter Finland ; Biological Imaging Network Academy of Finland ; University of Helsinki |
PMID:26727152 | Free, Available for download, Freely available | biotools:mib | https://www.youtube.com/watch?v=I9FWmJX_nl0&index=1&list=PLGkFvW985wz8cj8CWmXOFkXpvoX_HwXzj, https://bio.tools/mib | SCR_016560 | MIB, Microscopy Image Browser | 2026-08-14 09:27:45 | 160 | ||||
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MotionCor2 Resource Report Resource Website 100+ mentions |
MotionCor2 (RRID:SCR_016499) | data processing software, software application, data analysis software, software resource | Software tool for anisotropic correction of beam-induced motion for improved cryo-electron microscopy. Used to describe the sample motion as a local deformation that varies smoothly throughout the exposure. A program running on Linux. | anisotropic, correction, beam, induced, motion, cryo, electron, microscopy, exposure, data | has parent organization: University of California at San Francisco; California; USA | NIH R01 GM031627; NIGMS P01 GM111126 |
PMID:28250466 | Restricted | http://msg.ucsf.edu/em/software/motioncor2.html | SCR_016499 | MotionCor | 2026-08-14 09:27:25 | 186 | ||||||
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MCTrace Resource Report Resource Website 1+ mentions |
MCTrace (RRID:SCR_016532) | image analysis software, data processing software, software application, data analysis software, software resource | Software tool as a program for building skeletonized models of 3D structures with a graphical user interface. GUI based neuronal network model building. | build, skeletonized, model, 3D structure, neuronal, network | Free, Available for download, Freely available | SCR_016532 | 2026-08-14 09:27:26 | 3 | |||||||||||
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GenPipes Resource Report Resource Website 10+ mentions |
GenPipes (RRID:SCR_016376) | data processing software, software application, data analysis software, software resource | Software for genomics and bioinformatics analysis. GenPipes includes several python pipelines that cover many genomics applications, such as RNASeq, ChIPSeq, DNASeq, WGBS, HiC, Metagenomics, PacBio assembly, etc. | workflow, management, system, genomics, bioinformatics, rnaseq, chipseq, dnaseq, hic, metagenomics, WGBS, PacBio, Assembly, C3G | has parent organization: McGill University; Montreal; Canada | Free, Available for download, Tutorial available | http://www.computationalgenomics.ca/tutorials/ | SCR_016376 | 2026-08-14 09:27:34 | 18 | |||||||||
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Image Pro Resource Report Resource Website 500+ mentions |
Image Pro (RRID:SCR_016497) | image analysis software, image processing software, data processing software, software application, software resource | Software platform to perform image processing, analysis, and data reporting for microscope-based research and quality inspection. | MediaCybernetics Inc., capture, process, measure, analyze, share, image, data, automate, collect | Restricted | SCR_016758 | https://mediacy.com/image-pro | SCR_016497 | Image-Pro, Image-Pro Premier, Image Pro Premier | 2026-08-14 09:27:44 | 548 |
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