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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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JuGEx Resource Report Resource Website 1+ mentions |
JuGEx (RRID:SCR_023838) | software resource, software application | Software tool for integrating tissue transcriptome and cytoarchitectonic segregation. Combines data from Allen Human Brain Atlas and the EBRAINS Human Brain Atlas, specifically to discover how gene activities and microanatomical architectures contribute to brain function and dysfunction. Both tissue transcriptome and probabilistic brain segregation data allow for integrating genetic expression, brain structure, and function knowledge. | Allen Human Brain Atlas, EBRAINS Human Brain Atlas, tissue transcriptome, cytoarchitectonic segregation, integrating tissue transcriptome and cytoarchitectonic segregation, brain function, | is related to: Allen Institute for Brain Science | PMID:29478144 | Free, Available for download, Freely available | https://www.fz-juelich.de/de/inm/inm-1/leistungen/tools-services-und-forschungsdaten/jugex/jugex-download | SCR_023838 | 2026-08-12 10:52:53 | 1 | ||||||||
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findmaxima2d Resource Report Resource Website 1+ mentions |
findmaxima2d (RRID:SCR_023332) | software resource, software application | Software Python 2D Maxima finding algorithm. Re-implementation of Java plugin for ImageJ/Fiji. | Python, 2D Maxima finding algorithm, Java plugin | Free, Available for download, Freely available | https://github.com/dwaithe/MaximaFinder/tree/master/findmaxima2d | SCR_023332 | 2026-08-12 10:52:53 | 1 | ||||||||||
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AP-histology Resource Report Resource Website 10+ mentions |
AP-histology (RRID:SCR_023847) | software resource, software application | Software data pipeline which aligns histology images to the Allen CCF. | Allen Common Coordinate Framework, histology images aligning to Allen CCF, Allen CCF, aligns histology images, histology images, | is related to: Allen Institute for Brain Science | Free, Available for download, Freely available | SCR_023847 | 2026-08-12 10:52:59 | 13 | ||||||||||
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ListDiff Resource Report Resource Website 1+ mentions |
ListDiff (RRID:SCR_023569) | software resource, software application | Software tool that performs SET Operations including Set Intersections, Set Unions and Set Differences over lists of words, numbers etc with formatted results . Used for comparing differences between two lists. | comparing differences, list comparison, SET Operations, Set Intersections, Set Unions, Set Differences, lists of words, numbers, formatted results, | Free, Freely available | SCR_023569 | 2026-08-12 10:52:49 | 1 | |||||||||||
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HOMA2 calculator Resource Report Resource Website 50+ mentions |
HOMA2 calculator (RRID:SCR_023419) | software resource, software application | Software tool used to calculate Homeostasis Model Assessment which takes account of variations in hepatic and peripheral glucose resistance, increases in insulin secretion curve for plasma glucose concentrations and contribution of circulating proinsulin. Provides access to HOMA2 model for researchers who wish to use model derived estimates of %B and %S, rather than linear approximations. | calculate Homeostasis Model Assessment, Homeostasis Model Assessment, HOMA calculator | is related to: iHOMA2 | Free, Available for download, Freely available | SCR_023419 | HOMA Calculator | 2026-08-12 10:52:54 | 81 | |||||||||
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Vitrea Read Diagnostic Viewer Resource Report Resource Website 1+ mentions |
Vitrea Read Diagnostic Viewer (RRID:SCR_023418) | software resource, software application | Software application providing tools and features that may be used for general purpose radiological viewing and reading of image data from various imaging modalities, clinical review and performs functions of digital image processing, measurement, communications and storage. | Canon Medical Informatics, Inc., Diagnostic Viewer, radiological image viewing and reading, image data, digital image processing, | Restricted | https://www.vitalimages.com/enterprise-imaging-solution/enterprise-viewer/ | SCR_023418 | Diagnostic Viewer, Vitrea EasyViz Diagnostic Viewer, Vitrea Read, Vitrea EasyViz | 2026-08-12 10:53:02 | 1 | |||||||||
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NamSor Resource Report Resource Website 10+ mentions |
NamSor (RRID:SCR_023935) | software resource, software application | Software tool accurately classifies personal names by gender, country of origin or ethnicity. Can infer gender, translate Chinese names and Japanese names, format phone number, and split full name via user interface and API. Used as name checker for gender, origin and ethnicity determination. | name checker for gender, origin and ethnicity determination, infer gender, translate Chinese names and Japanese names, format phone number, | Free, Freely available | SCR_023935 | 2026-08-12 10:53:00 | 15 | |||||||||||
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VarDict Resource Report Resource Website 10+ mentions |
VarDict (RRID:SCR_023658) | software resource, software application | Software tool as variant caller for both single and paired sample variant calling from BAM files. Implements amplicon bias aware variant calling from targeted sequencing experiments, rescue of long indels by realigning bwa soft clipped reads.Novel and versatile variant caller for next generation sequencing in cancer research. | variant caller, BAM files, amplicon bias aware variant calling, sequencing experiments, next generation sequencing, long indels, | is related to: vardictcpp | AstraZeneca | PMID:27060149 | Free, Available for download, Freely available | SCR_023658 | 2026-08-12 10:52:57 | 38 | ||||||||
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panelcn.mops Resource Report Resource Website 1+ mentions |
panelcn.mops (RRID:SCR_023657) | standalone software, software application, software toolkit, software resource | Software R package as CNV detection tool for targeted NGS panel data. Extension of cn.mops package. Used for detecting copy number variations in targeted next generation sequencing panel data. Suitable to use for clinical geneticists for routine clinical diagnostics. | Copy Number Variations detection, targeted next generation sequencing panel data, targeted NGS panel data, CNV detection, routine clinical diagnostics, | Johannes Kepler University Linz ; Medical University Innsbruck |
PMID:28449315 | Free, Available for download, Freely available | SCR_023657 | panelcn.MOPS | 2026-08-12 10:53:04 | 1 | ||||||||
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Grammarly Resource Report Resource Website 50+ mentions |
Grammarly (RRID:SCR_023778) | software resource, software application | Software to correct spelling and grammar. | English, spelling, grammar, correction, | Free, Freely available | SCR_023778 | 2026-08-12 10:52:52 | 79 | |||||||||||
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Molecular Operating Environment Resource Report Resource Website 10+ mentions |
Molecular Operating Environment (RRID:SCR_023932) | MOE | software resource, software application | Drug discovery platform to integrate visualization, modeling and simulation in single package. Integrated computer aided molecular design platform. | Chemical Computing Group ULC., drug discovery, visualization, modeling, simulation, molecular design, | Restricted | SCR_023932 | Chemical Computing Group ULC Molecular Operating Environment, Molecular Operating Environment (MOE) | 2026-08-12 10:52:54 | 27 | |||||||||
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ChatGPT Resource Report Resource Website 500+ mentions |
ChatGPT (RRID:SCR_023775) | software resource, software application | Artificial Iinteligence chatbot that uses natural language processing to create humanlike conversational dialogue. Notable for enabling users to refine and steer conversation towards desired length, format, style, level of detail, and language used. Sibling model to InstructGPT, which is trained to follow instruction in prompt and provide detailed response. | natural language processing, humanlike conversational dialogue, provide detailed response, | Restricted | SCR_023775 | 2026-08-12 10:52:52 | 695 | |||||||||||
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CeleScope Resource Report Resource Website 100+ mentions |
CeleScope (RRID:SCR_023553) | software resource, software application | Software tool as collection of bioinfomatics analysis pipelines to process single cell sequencing data generated with Singleron products. Single cell analysis pipelines developed by Singleron Biotechnologies. | Single cell analysis, process single cell sequencing data, Singleron Biotechnologies, | Free, Available for download, Freely available | https://pypi.org/project/celescope/ | SCR_023553 | 2026-08-12 10:53:03 | 177 | ||||||||||
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mitochondria simulator Resource Report Resource Website 1+ mentions |
mitochondria simulator (RRID:SCR_023430) | software resource, software application | Software repository for mtDNA assembly project. | mitochondria, assembly, de bruijn graph, data mining, mtDNA assembly project, | Free, Available for download, Freely available | SCR_023430 | mitochondria-simulator | 2026-08-12 10:52:47 | 8 | ||||||||||
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treemix_tree_with_bootstraps.py Resource Report Resource Website 1+ mentions |
treemix_tree_with_bootstraps.py (RRID:SCR_023426) | software resource, software application | Phython script for bootstraping Treemix snp trees to generate confidance intervals in the main tree. | Phython script, bootstraping Treemix snp trees, generate confidance intervals, main tree, | Free, Available for download, Freely available | SCR_023426 | 2026-08-12 10:53:02 | 1 | |||||||||||
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GeneWalk Resource Report Resource Website 1+ mentions |
GeneWalk (RRID:SCR_023787) | software resource, software application | Software for individual genes functions determination that are relevant in particular biological context and experimental condition. Quantifies similarity between vector representations of gene and annotated GO terms through representation learning with random walks on condition specific gene regulatory network. Similarity significance is determined through comparison with node similarities from randomized networks. | genes functions determination, vector representations of gene, annotated GO terms, similarity significance, node similarities, randomized networks, | NHGRI R01 HG007173 | PMID:33526072 | Free, Available for download, Freely available | https://churchman.med.harvard.edu/genewalk | SCR_023787 | 2026-08-12 10:52:58 | 4 | ||||||||
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mirtop Resource Report Resource Website 1+ mentions |
mirtop (RRID:SCR_024116) | software resource, software application | Command lines tool to annotate miRNAs with standard mirna/isomir naming. | annotate miRNAs, standard mirna/isomir naming, | is listed by: Debian | DOI:10.7490/f1000research.1115724.1 | Free, Available for download, Freely available, | OMICS_31718 | https://sources.debian.org/src/mirtop/, https://mirtop.readthedocs.io/en/latest/ | SCR_024116 | 2026-08-12 10:53:03 | 1 | |||||||
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SMILE Resource Report Resource Website 1+ mentions |
SMILE (RRID:SCR_024119) | software resource, software application | Software tool that infers motifs in set of sequences to infer exceptionnal sites as binding sites in DNA sequences. 1.4 version allows to infer motifs written on any alphabet in any kind of sequences. Allows to deal with motifs associated by some distance constraints. Used to group under unique model different occurrences composed of several boxes separated by spacers of different lengths. | infers motifs in set of sequences, binding sites in DNA sequences, distance constraints, | is listed by: Debian | Free, Available for download, Freely available, | OMICS_20188 | https://sources.debian.org/src/mlv-smile/ | SCR_024119 | mlv-smile | 2026-08-12 10:53:03 | 1 | |||||||
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samclip Resource Report Resource Website 1+ mentions |
samclip (RRID:SCR_024330) | software resource, software application | Software tool to filter SAM file for soft and hard clipped alignments | filter SAM file, soft and hard clipped alignments, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/samclip/ | SCR_024330 | 2026-08-12 10:53:02 | 2 | |||||||||
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seqwish Resource Report Resource Website 1+ mentions |
seqwish (RRID:SCR_024332) | software resource, software application | Software tool for alignment to variation graph inducer. | alignment, variation graph inducer, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/seqwish/ | SCR_024332 | 2026-08-12 10:53:06 | 2 |
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