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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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BorutaShap Resource Report Resource Website 1+ mentions |
BorutaShap (RRID:SCR_021696) | software resource | Software tool as wrapper feature selection method which combines both Boruta feature selection algorithm with shapley values. | Wrapper feature selection method, Boruta feature selection algorithm, shapley values | Free, Available for download, Freely available | https://github.com/Ekeany/Boruta-Shap | SCR_021696 | 2026-07-25 12:09:50 | 6 | ||||||||||
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LightGBM Resource Report Resource Website 10+ mentions |
LightGBM (RRID:SCR_021697) | software resource | Software tool as gradient boosting framework that uses tree based learning algorithms. Designed to be distributed and efficient with advantages:Faster training speed and higher efficiency;Lower memory usage;Better accuracy;Support of parallel, distributed, and GPU learning;Capable of handling large scale data. | Gradient boosting framework | Free, Available for download, Freely available | https://github.com/Microsoft/LightGBM/blob/master/docs/index.rst | SCR_021697 | 2026-07-25 12:09:51 | 14 | ||||||||||
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pyxDamerauLevenshtein Resource Report Resource Website 1+ mentions |
pyxDamerauLevenshtein (RRID:SCR_021858) | software resource | Software tool implements Damerau-Levenshtein (DL) edit distance algorithm for Python in Cython for high performance. | Damerau-Levenshtein, edit distance algorithm | Free, Available for download, Freely available | SCR_021858 | 2026-07-25 12:09:52 | 1 | |||||||||||
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PI Motion Control Software Resource Report Resource Website |
PI Motion Control Software (RRID:SCR_021867) | software resource | Software to control positioning systems without their own macro facility. | Physik Instrumente, control positioning systems, without their own macro facility | Restricted | SCR_021867 | Physik Instrumente Motion Control Software, Motion Control Software | 2026-07-25 12:09:52 | 0 | ||||||||||
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Phenex Resource Report Resource Website |
Phenex (RRID:SCR_021748) | software resource | Software application for annotating character matrix files with ontology terms. Character states can be annotated using Entity-Quality syntax, where entity, quality, and possibly related entities are drawn from requisite ontologies. In addition, taxa (the rows of a character matrix) can be annotated with identifiers from taxonomy ontology. Phenex saves ontology annotations alongside original free text character matrix data using new NeXML format standard for evolutionary data. | phenotype, ontology, taxonomy ontology, taxa, ontology annotations, free text character matrix data, NeXML, evolutionary data | NSF DBI 0641025; NHGRI HG002659; NSF EF0423641 |
DOI:10.1371/journal.pone.0010500 | Free, Available for download, Freely available | https://github.com/phenoscape/Phenex/wiki#download--installation | SCR_021748 | 2026-07-25 12:09:51 | 0 | ||||||||
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NanoString: nCounter Analysis System Resource Report Resource Website 10+ mentions |
NanoString: nCounter Analysis System (RRID:SCR_021712) | nCounter | instrument resource | System includes hardware and software. Options include nCounter SPRINT,nCounter MAX or nCounter FLEX. Platform used for multiplex analysis of up to 800 RNA, DNA, or protein targets. System can be combined with GeoMx Digital Spatial Profiler (DSP) to enable high-plex, spatially-resolved RNA, and protein quantification. | Multiplex analysis, RNA analysis, DNA analysis, Protein analysis, NanoString Differential Expression, NanoString, analysis system, instrument, equipment, USEDit, ABRF | is listed by: USEDit | Commercially available | SCR_021712 | nCounter Analysis System, Bruker nCounter Analysis System | 2026-07-25 12:09:50 | 29 | ||||||||
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YAML Resource Report Resource Website 10+ mentions |
YAML (RRID:SCR_021710) | software resource | YAML is a human friendly data serialization language for all programming languages. Unicode based data serialization language designed around common native data types of agile programming languages. Useful for programming needs ranging from configuration files to Internet messaging to object persistence to data auditing. | Data serialization language, common native data types, agile programming languages, configuration files, Internet messaging, object persistence, data auditing | Free, Freely available | https://yaml.org/spec/1.2.1/ | SCR_021710 | YAML 1.2 | 2026-07-25 12:09:50 | 17 | |||||||||
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TriKinetics: Drosophila Activity Monitoring System Resource Report Resource Website 1+ mentions |
TriKinetics: Drosophila Activity Monitoring System (RRID:SCR_021798) | instrument resource | System from TriKinetics for monitoring Drosophila activity. Includes hardware and DAMSystem3 Software for data acquision and DAMFileScan Software for scanning data for errors. Applied to behavioral activity experiments, including sleep deprivation analyses and general studies of hypoactivity and hyperactivity. | monitoring Drosophila activity, behavioral activity experiment, behavioral activity, activity monitoring |
is related to: TriKinetics DAMSystem3 Software is related to: Trikinetics DAM FileScan |
DOI:10.1101/pdb.prot5518 | Restricted | SCR_021798 | Drosophila Activity Monitoring System, DAM, DAM System, Drosophila Activity Monitor | 2026-07-25 12:09:52 | 9 | ||||||||
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Trikinetics DAM FileScan Resource Report Resource Website 1+ mentions |
Trikinetics DAM FileScan (RRID:SCR_021817) | software resource | Software tool used in Drosophila Activity Monitor system to scann data for errors. Also allows user to extract data from monitor files and bin data in different lengths. | scann data for errors, Drosophila Activity Monitor system, extract data | is related to: TriKinetics: Drosophila Activity Monitoring System | SCR_021817 | DAM FileScan | 2026-07-25 12:09:52 | 1 | ||||||||||
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Max Planck Institute for Psycholinguistics; Nijmegen; Netherlands Resource Report Resource Website 1+ mentions |
Max Planck Institute for Psycholinguistics; Nijmegen; Netherlands (RRID:SCR_021706) | institution | Institute is entirely devoted to psycholinguistics – the study of how we produce and understand language, and how we acquire these skills as first or second language learners. The only institution in the world entirely dedicated to psycholinguistics, and is also one of only three among total of 90 within the Max Planck Society to be located outside Germany. |
has parent organization: Max-Planck-Gesellschaft is parent organization of: ELAN |
SCR_021706 | 2026-07-25 12:09:51 | 1 | ||||||||||||
|
ELAN Resource Report Resource Website 10+ mentions |
ELAN (RRID:SCR_021705) | software resource | Software annotation tool for audio and video recordings. Annotation can be sentence, word or gloss, comment, translation or description of any feature observed in media. Annotations can be created on multiple layers. Tiers can be hierarchically interconnected. Annotation can either be time-aligned to media or it can refer to other existing annotations. Content of annotations consists of Unicode text and annotation documents are stored in XML format (EAF). | Annotation tool, audio recordings, video recordings, Unicode text, annotation documents, documents stored, XML format | has parent organization: Max Planck Institute for Psycholinguistics; Nijmegen; Netherlands | Free, Available for download, Freely available | SCR_021705 | 2026-07-25 12:09:50 | 19 | ||||||||||
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Seq-N-Slide Resource Report Resource Website 10+ mentions |
Seq-N-Slide (RRID:SCR_021752) | software resource | Set of automated workflows for common sequencing based (Illumina) protocols, such as RNA-seq, ChIP-seq, ATAC-seq, WGBS/RRBS methylation, whole genome/exome/targeted variant detection, and contaminant screening. Sequencing data analysis pipelines. | Sequencing data analysis pipelines | Free, Available for download, Freely available | SCR_021752 | 2026-07-25 12:09:51 | 16 | |||||||||||
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Halvade Somatic Resource Report Resource Website 1+ mentions |
Halvade Somatic (RRID:SCR_021771) | software resource | Software implements germline and somatic variant calling pipelines based on best practices pipelines from Broad Institute using Spark framework. Produces VCF output file which contains single nucleotide polymorphisms (SNPs) and short insertions and deletions (indels) when supported by used tools. Program requires Spark on either local cluster with one or more nodes, Amazon EMR cluster or Docker image to run. | somatic variant, GATK, Halvade, VCF output file, germline, somatic variant calling, Spark framework | uses: GATK | Free, Available for download, Freely available | SCR_021771 | Halvade for Spark | 2026-07-25 12:09:52 | 1 | |||||||||
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Online Kappa Calculator Resource Report Resource Website 1+ mentions |
Online Kappa Calculator (RRID:SCR_021770) | software resource | Software tool can be used to calculate kappa, chance adjusted measure of agreement, for any number of cases, categories, or raters. | Calculator, calculate kappa, chance adjusted measure of agreement, number of cases, number of categories, number of | Free, Freely available | SCR_021770 | 2026-07-25 12:09:51 | 8 | |||||||||||
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Interact Resource Report Resource Website 1+ mentions |
Interact (RRID:SCR_019254) | software resource | Software platform for synchronized viewing and analysis of video footage and audio files in observational research by Mangold International GmbH. Qualitative and quantitative video coding software. | Synchronized viewing, analysis, video footage, audio files, observational research, video coding | Restricted | SCR_019254 | 2026-07-25 12:09:06 | 5 | |||||||||||
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cthist Resource Report Resource Website 1+ mentions |
cthist (RRID:SCR_019229) | software resource | Software tool for mass downloading of historical clinical trial data from ClinicalTrials.gov. | Mass downloading, historical clinical trial data, ClinicalTrials.gov, trial registry number | is related to: ClinicalTrials.gov | Free, Available for download, Freely available | https://github.com/bgcarlisle/cthist | SCR_019229 | 2026-07-25 12:09:06 | 1 | |||||||||
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ObjectJ Resource Report Resource Website 10+ mentions |
ObjectJ (RRID:SCR_019190) | software resource | Software tool used for non destructive marking and linked results in ImageJ. Integrates image analysis across many images or stacks into single project file. | Image analysis file integration, file integration, image analysis, non destructive marking, ImageJ | is a plug in for: ImageJ | Free, Available for download, Freely available | SCR_019190 | 2026-07-25 12:09:04 | 25 | ||||||||||
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Phase Holographic Imaging: HoloMonitor live cell imaging and analysis system Resource Report Resource Website 1+ mentions |
Phase Holographic Imaging: HoloMonitor live cell imaging and analysis system (RRID:SCR_019231) | instrument resource | HoloMonitor live cell imaging and analysis system by Phase Holographic Imaging PHI AB. Contains small, digital live cell, quantitative phase imaging microscope HoloMonitor M4 designed to operate constantly inside incubator and HoloMonitor cell imaging software App Suite or Hstudio to continuously monitor and quantitatively analyze both individual cells and cell populations over time without any cellular labels or stains. Microscope can operate in cell incubator, hypoxia chamber or on lab bench. | Phase holographic imaging, microscope, instrument, equipment, phase imaging, incubator tolerant, hypoxia chamber tolerant, lab bench, digital holography, cell recording, live cell imaging, Phase Holographic Imaging PHI AB | https://raw.githubusercontent.com/SciCrunch/RRID-Instruments/refs/heads/main/PDF/SCR_019231.pdf | https://phiab.com/ | SCR_019231 | , HoloMonitor microscope, HoloMonitor live cell imaging and analysis system, HoloMonitor® M4, HoloMonitor M3 | 2026-07-25 12:09:05 | 1 | |||||||||
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Agilent: 240FS AA Atomic Absorption System Resource Report Resource Website |
Agilent: 240FS AA Atomic Absorption System (RRID:SCR_019397) | instrument resource | Atomic Absorption System determines the concentration of all elements from a single aspiration. | Agilent, Atomic Absorption System, Instrument Equipment, USEDit, | Commercially available | https://raw.githubusercontent.com/SciCrunch/RRID-Instruments/main/PDF/SCR_019397.pdf | Model_Number_240FS | SCR_019397 | 2026-07-25 12:09:08 | 0 | |||||||||
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Agilent: 5500 Series Compact FTIR Resource Report Resource Website |
Agilent: 5500 Series Compact FTIR (RRID:SCR_019412) | instrument resource | Portable FTIR analyzer from Agilent 5500 Series with compact dimentions are small-sized, mid-infrared region spectrometers designed to provide capabilities of larger, traditional FTIR systems. | Agilent, Compact FTIR, Instrument Equipment, USEDit, | Commercially available | https://raw.githubusercontent.com/SciCrunch/RRID-Instruments/main/PDF/SCR_019412.pdf | Model_Number_Agilent_5500_Compact_FTIR | https://www.agilent.com/cs/library/brochures/br-4500-5500-FTIR-instruments-5994-7153en-agilent.pdf | SCR_019412 | 2026-07-25 12:09:10 | 0 |
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Data set from Kravitz, Owen and Kretizer's 2012 paper "Optogenetic identification of striatal projection neuron subtypes during in vivo recordings."
