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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Diabetes Epigenome Atlas Resource Report Resource Website 1+ mentions |
Diabetes Epigenome Atlas (RRID:SCR_016441) | atlas, topical portal, disease-related portal, data or information resource, portal, database | Collects and provides data on the human genome and epigenome to facilitate genetic studies of type 2 diabetes and its complications. A component of the AMP T2D consortium, which includes the National Institute for Diabetes and Digestive and Kidney Diseases (NIDDK) and an international collaboration of researchers. | collect, provide, data, human, genome, epigenome, genetic, study, type 2 diabetes |
has parent organization: Stanford University; Stanford; California has parent organization: University of California at San Diego; California; USA |
type 2 diabetes | NIDDK U01 DK100554 | Free, Proprietary data are available only to approved AMP consortium users with user accounts | SCR_016537 | SCR_016441 | 2026-08-06 09:28:54 | 2 | |||||||
|
MyAssays Resource Report Resource Website 50+ mentions |
MyAssays (RRID:SCR_016562) | software resource, service resource, data analysis software, data processing software, software application | Software tool for assay data analysis. | assay, data, analysis | Free, Freely available, Registration required, Tutorial available | SCR_016562 | 2026-08-06 09:28:54 | 70 | |||||||||||
|
Respironics Actiware Resource Report Resource Website 1+ mentions |
Respironics Actiware (RRID:SCR_016440) | software resource, data analysis software, data management software, software toolkit, data processing software, software application | Software package to analyze, manage, and export recorded activity data from all Actiwatch models. Used to view long-term sleep/wake patterns, activity, illuminance, and event markers in an easy-to-read actogram format. | Philips, Respironics, analyze, manage, export, recorded, activity, data, view, long, term, sleep, wake, pattern, actogram | Commercially available, Free trial available | SCR_016440 | 2026-08-06 09:28:49 | 7 | |||||||||||
|
Venny 2.1 Resource Report Resource Website 100+ mentions |
Venny 2.1 (RRID:SCR_016561) | data analysis software, software application, software resource, data processing software | Software tool for comparing lists with Venn's diagrams. | compare, list, data, Venn, diagram | Open source | http://www.citeulike.org/user/hroest/article/6994833 | SCR_016561 | 2026-08-06 09:28:55 | 386 | ||||||||||
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Splicing Express Resource Report Resource Website 1+ mentions |
Splicing Express (RRID:SCR_016498) | software resource, data analysis software, data processing software, data visualization software, software application | Software suite for Alternative Splicing Events (ASEs) analysis from transcriptome sequencing data in any transcriptome. Used for identification, annotation and visualization. Written in Perl and suitable to run only in UNIX-like systems. | alternative, splicing, analysis, next, generation, sequencing, data, transcriptome, identify, annotate, visualize, Perl, UNIX, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools |
PMID:26618088 | Free, Available for download, Freely available | biotools:splicing_express | https://bio.tools/splicing_express | SCR_016498 | 2026-08-06 09:28:55 | 3 | |||||||
|
SARTools Resource Report Resource Website 100+ mentions |
SARTools (RRID:SCR_016533) | software resource, data analysis software, software toolkit, data processing software, software application | Software package as a DESeq2- and EdgeR-Based R Pipeline for Comprehensive Differential Analysis of RNA-Seq Data. | R package, DESeq2, EdgeR, comprehensive, analysis, RNAseq, data, bio.tools |
is listed by: Debian is listed by: bio.tools is related to: DESeq2 is related to: edgeR has parent organization: Pasteur Institute |
the France Génomique National Infrastructure | PMID:27280887 | Free, Available for download, Freely available | biotools:sartools | https://bio.tools/sartools | SCR_016533 | 2026-08-06 09:28:51 | 136 | ||||||
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TRANSIT Resource Report Resource Website 1+ mentions |
TRANSIT (RRID:SCR_016492) | data analysis software, software application, software resource, data processing software | Software tool Python based and open source for statistical analysis of TnSeq data. Provides a graphical interface to three different statistical methods for analyzing TnSeq data capable of identifying essential genes in individual datasets as well as comparative analysis between conditions. | statistical, analysis, TnSeq, data, identify, gene, dataset, bio.tools |
is listed by: Debian is listed by: bio.tools is related to: Texas A and M University; Texas; USA |
PMID:26447887 | Free, Available for download, Freely available | biotools:transit | https://github.com/mad-lab/transit, https://bio.tools/transit | SCR_016492 | 2026-08-06 09:28:53 | 4 | |||||||
|
KiloSort Resource Report Resource Website 100+ mentions |
KiloSort (RRID:SCR_016422) | software application, software resource, data processing software, algorithm resource | Software tool that implements an integrated template matching framework for detecting and clustering spikes from multi-channel electrophysiological recordings. | implement, integrated, template, matching, framework, detect, cluster, spike, multi, channel, electrophysiology, recording, data | is related to: MATLAB | Free, Available for download, Freely available | SCR_016422 | 2026-08-06 09:28:52 | 115 | ||||||||||
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PiGx Resource Report Resource Website 1+ mentions |
PiGx (RRID:SCR_016476) | PiGx | sequence analysis software, software resource, data analysis software, software toolkit, data processing software, software application | Software application as a collection of genomic pipelines used for raw fastq read data of bisulfite experiments, RNAseq samples, single cell dropseq analysis, reads from ChIPseq experiments, analysis of sequence mutations in CRISPR-CAS9 targeted amplicon sequencing data. | collection, genomic, pipeline, bisulfite, sequencing, rnaseq, chipseq, single, cell, reproducibility, sample, analysis, mutation, data | German Federal Ministry of Education and Research (BMBF) 031 A538C RBC (de.NBI); European Union Horizon 2020 No 654248 |
Free, Available for download, Freely available | https://github.com/BIMSBbioinfo/pigx | SCR_016476 | Pipelines in Genomics | 2026-08-06 09:28:50 | 6 | |||||||
|
Unpaywall Resource Report Resource Website 10+ mentions |
Unpaywall (RRID:SCR_016471) | storage service resource, software resource, data access protocol, service resource, data repository, data or information resource, web service, database | Database of free scholary articles. Content from over 50,000 publishers and repositories easy to find, track, and use. A website featuring web-based tools created and maintained by Impactstory, Inc. | Impactstory, data, scholary, research, articles, repository, find, track, use, open, reusable, non profit | Open source, Some features require purchase, Unpaywall and Impactstory Privacy Policy, Persons under the age of 13 are not permitted to use the Service | SCR_016471 | 2026-08-06 09:28:52 | 13 | |||||||||||
|
Transcriptome Analysis Console Resource Report Resource Website 10+ mentions |
Transcriptome Analysis Console (RRID:SCR_016519) | TAC | sequence analysis software, software resource, data analysis software, data processing software, software application | Software tool for microarray analysis designed for biologists . Used for identification of differential expression by providing interactive visualizations. | transcriptome, analysis, console, data, array, gene, visualization, identify | Commercially available | SCR_016519 | TAC:Transcriptome Analysis Console | 2026-08-06 09:28:50 | 19 | |||||||||
|
Viewbox4, Cephalometric software Resource Report Resource Website 1+ mentions |
Viewbox4, Cephalometric software (RRID:SCR_016481) | software resource, image analysis software, data analysis software, data processing software, software application | Software for cephalometric analysis. Customizable. Allows rendering, viewing and measuring of 3D data from CT scanners. Used in orthodontic departments for analysis of the dental and skeletal relationships of a human skull. | dHAL Software - The Company, cephalometric, analysis, rendering, viewing, measuring, data, CT scan, orthodontic, dental, skeletal, relationship, human, skull | Commercially available, Tutorial available | SCR_016481 | 2026-08-06 09:28:54 | 5 | |||||||||||
|
eulerAPE Resource Report Resource Website 10+ mentions |
eulerAPE (RRID:SCR_016457) | data visualization software, software application, software resource, data processing software | Software that uses ellipses to automatically draw accurate area-proportional Venn diagrams for 3-set data. It generates an exact diagram for most of the cases, and when it fails, the best diagram obtained through the hill climbing search is displayed, together with the inaccuracy values for each region. | euler, venn, diagram, graph, mathematics, math, data, draw | School of Computing ; University of Kent ; UK |
PMID:25032825 | SCR_016457 | Euler Ape | 2026-08-06 09:28:52 | 31 | |||||||||
|
dplyr Resource Report Resource Website 100+ mentions |
dplyr (RRID:SCR_016708) | data analysis software, software application, software resource, data processing software | Software tool for working with data frame like objects, both in memory and out of memory. It is a grammar of data manipulation, providing a consistent set of verbs that help you solve the most common data manipulation challenges: mutate, select, filer, summerise, arrange. | data, frame, object, in and of memory, grammar, manipulation, set, verb, mutate, select, filter, summerise, arrange |
is used by: PlotsOfData is used by: tidyverse is listed by: CRAN is related to: R Project for Statistical Computing works with: tidyr |
Open Source, Available for download | https://github.com/tidyverse/dplyr, https://dplyr.tidyverse.org/ | SCR_016708 | 2026-08-06 09:28:53 | 200 | |||||||||
|
MAJIQ Resource Report Resource Website 10+ mentions |
MAJIQ (RRID:SCR_016706) | MAJIQ, | software resource, data analysis software, software toolkit, data processing software, software application | Software package to detect and quantify local splicing variations (LSV) from RNA-Seq data. Used to automatically detect and downweight outliers in RNA-Seq datasets with replicates for differential splicing (SD) analysis. | detect, quantify, local, splicing, variation, RNA-Seq, data, replicate, differential, analysis | has parent organization: University of Pennsylvania; Philadelphia; USA | NIA R01 AG046544; Penn Institute for Biomedical Informatics Pilot |
PMID:29236961 | Free, Available for download, Freely available, Tutorial available | SCR_016706 | MAJIQ, MAJIQ/Viola, Modeling Alternative Junction Inclusion Quantification | 2026-08-06 09:28:56 | 30 | ||||||
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Open Data Commons for Spinal Cord Injury Resource Report Resource Website 10+ mentions |
Open Data Commons for Spinal Cord Injury (RRID:SCR_016673) | odc-sci, ODC-SCI | storage service resource, topical portal, service resource, data repository, data or information resource, portal | Portal for sharing spinal cord injury data from basic and clinical research to promote transparency, rigor and reproducibility. Community based repository for spinal cord injury research. | spinal, cord, injury, data, repository |
is listed by: DataCite has parent organization: University of California at San Diego; California; USA has parent organization: University of California; California; USA |
Craig H. Neilsen Foundation | Free, Registration required | r3d100014071 | https://doi.org/10.34945/, https://dx.doi.org/10.34945/, https://api.datacite.org/dois?prefix=10.34945, https://doi.org/10.17616/R31NJNCN | SCR_016673 | , Open Data Commons for Spinal Cord Injury, Open Data Commons at UCSD FDI Lab | 2026-08-06 09:28:56 | 40 | |||||
|
Colour maps for brain imaging Resource Report Resource Website 1+ mentions |
Colour maps for brain imaging (RRID:SCR_016715) | software resource, image analysis software, data processing software, data visualization software, software application | Software tool as a perceptually uniform color maps. Used in scientific literature to reflect data of brain imaging. | perceptually, uniform, color, map, brain, data, imaging |
is related to: MRIcron is related to: MATLAB has parent organization: University of Western Australia; Perth; Australia |
Free, Available for download, Freely available | SCR_016715 | Colour maps, brain_colours, colour maps, brain colours, Brain colours, colour maps for brain imaging, Colour maps for brain imaging | 2026-08-06 09:28:56 | 1 | |||||||||
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ANOCVA Resource Report Resource Website |
ANOCVA (RRID:SCR_016719) | ANOCVA | data analysis software, software application, software resource, data processing software | Software R package as a nonparametric statistical test to compare clustering structures with applications in functional magnetic resonance imaging data (fMRI). Used for analysis of cluster variability in the diagnosis of neuropsychological disorders. | nonparametric, statistical, test, compare, clustering, structure, functional, brain, network, magnetic, resonance, imaging, data, fMRI, bio.tools |
is listed by: Debian is listed by: bio.tools is affiliated with: CRAN |
CAPES and CNPq Fellowships ; State of São Paulo Research Foundation ; Pew Latin American Fellowship ; Ciência sem Fronteiras Fellowship ; NAP eScience |
PMID:28174516 | Free, Available for download, Freely available | biotools:anocva | https://bio.tools/anocva | SCR_016719 | ANalysis Of Cluster VAriability, Analysis of Cluster Variability | 2026-08-06 09:28:57 | 0 | ||||
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GEO2R Resource Report Resource Website 50+ mentions |
GEO2R (RRID:SCR_016569) | data analysis software, software application, software resource, data processing software | Software as an interactive web tool to compare two or more groups of samples in a Gene Expression Omnibus (GEO) series regardless of data type and quality. Used to identify genes that are differentially expressed across experimental conditions. Results are presented as a table of genes ordered by significance. | compare, group, sample, gene, expression, omnibus, data, identify, differentially, expressed, across, condition, bio.tools |
is listed by: bio.tools is listed by: Debian is related to: Bioconductor is related to: GEOquery is related to: LIMMA |
Free, Available for download, Freely available | biotools:GEO2R | https://bio.tools/GEO2R | SCR_016569 | 2026-08-06 09:28:51 | 58 | ||||||||
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CARD Resource Report Resource Website 10+ mentions |
CARD (RRID:SCR_016602) | CARD | software resource, service resource, production service resource, data analysis service, data or information resource, web application, analysis service resource, database | Web application for integrated analysis and interactive visualization of RNA interference (RNAi) screening data. | integrated, analysis, interactive, visualization, RNA, interfernce, screening, data, bio.tools |
is listed by: bio.tools is listed by: Debian |
Australian Cancer Research Foundation ; Victorian Department of Industry ; Innovation and Regional Development ; Australian Government’s Education Investment Fund ; Australasian Genomics Technologies Association ; Brockhoff Foundation ; Peter MacCallum Cancer Centre Foundation |
PMID:26902267 | Free, Freely available | biotools:CARD | https://bio.tools/CARD | SCR_016602 | CARD, Comprehensive Analysis of RNAi-screen Data | 2026-08-06 09:28:52 | 20 |
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