FAIRness of GTEx Tools and Datasets

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FAIR evaluation of the GTEx tools and datasets

Tags: DCPPC

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Project Assessments (15)


Assessment Metrics Date
Target Rubric   The tool has a unique name and an informative description. The tool can be freely downloaded or accessed from a webpage. The tool utilizes a community-accepted ontology. Tutorials for the tool are available on the tool’s homepage. Source code is shared in a public repository and is documented. Previous versions of the tool are made available. Contact information is provided for the creator(s) of the tool and information describing how to cite the tool is provided. The tool can be accessed programmatically through an API and follows community standards for open APIs. Licensing information is provided on the tool’s homepage. A standardized ID or accession number is used to identify the dataset. The dataset is described with metadata using a formal, broadly applicable vocabulary. Information is provided on the experimental methods used to generate the data. The dataset is hosted in an established data repository, if a relevant repository exists. The dataset can be downloaded for free from the repository. Version information is provided for the dataset. Contact information is provided for the creator(s) of the dataset. Information is provided describing how to cite the dataset. Licensing information is provided on the dataset’s landing page. The structure of the repository permits efficient discovery of data and metadata by end users. The repository uses a standardized protocol to permit access by users. The repository provides contact information for staff to enable users with questions or suggestions to interact with repository experts. Tools that can be used to analyze each dataset are listed on the corresponding dataset pages. The repository maintains licenses to manage data access and use. The repository hosts data and metadata according to a set of defined criteria to ensure that the resources provided are consistent with the intent of the repository. The repository provides documentation for each resource to permit its complete and accurate citation. A description of the methods used to acquire the data is provided. Version information is provided for each resource, where available. Data is expressed in compliance with a machine-understandable community standard (Important) ANISEED database provides clear steps to reproduce the data Globally unique identifier
GTEx Portal Datasets The FAIRshake dataset rubric
                  no (0.00) yes (1.00) yes (1.00) yes (1.00) yesbut (0.75) yes (1.00) yes (1.00) yes (1.00) no (0.00)                           Sep 4, 2018
GTEx Test Your Own The FAIRshake tool rubric
no (0.00) yes (1.00) yes (1.00) no (0.00) no (0.00) no (0.00) yes (1.00) no (0.00) no (0.00)                                             Sep 4, 2018
GTEx Single-Tissue eQTLs The FAIRshake tool rubric
no (0.00) yes (1.00) yes (1.00) no (0.00) no (0.00) no (0.00) yes (1.00) no (0.00) no (0.00)                                             Sep 4, 2018
Gene eQTL Visualizer The FAIRshake tool rubric
no (0.00) yes (1.00) yes (1.00) yes (1.00) no (0.00) no (0.00) yes (1.00) no (0.00) no (0.00)                                             Sep 4, 2018
IGV eQTL Browser The FAIRshake tool rubric
yesbut (0.75) yes (1.00) yes (1.00) no (0.00) no (0.00) no (0.00) yes (1.00) no (0.00) no (0.00)                                             Sep 4, 2018
eQTL Dashboard The FAIRshake tool rubric
no (0.00) yes (1.00) yes (1.00) no (0.00) no (0.00) no (0.00) yes (1.00) no (0.00) no (0.00)                                             Sep 4, 2018
Gene eQTL Visualizer The FAIRshake tool rubric
yes (1.00) yes (1.00) yes (1.00) yes (1.00) yes (1.00) yes (1.00) yes (1.00) yes (1.00) yes (1.00)                                             Jan 15, 2019
GTEx Portal Datasets The FAIRshake dataset rubric
                                                              Feb 5, 2020
Genotype-Tissue Expression The FAIRshake repository rubric
                                                              Sep 17, 2020
Genotype-Tissue Expression FairmetricsPlus: Veracity
                                                      yes (1.00)   yes (1.00) yes (1.00) Feb 18, 2021
Genotype-Tissue Expression The FAIRshake repository rubric
                                                              Apr 5, 2021
GTEx Portal Datasets The FAIRshake dataset rubric
                  yes (1.00) yesbut (0.75) yes (1.00) yes (1.00) yesbut (0.75) yes (1.00) yesbut (0.75) yes (1.00) no (0.00)                           Oct 23, 2021
Genotype-Tissue Expression The FAIRshake repository rubric
                                    yes (1.00) yesbut (0.75) yes (1.00) nobut (0.25) nobut (0.25) yes (1.00) yes (1.00) yes (1.00) yes (1.00)         Oct 27, 2021
GTEx Portal Datasets The FAIRshake dataset rubric
                                                              Mar 1, 2022
GTEx Tissue Dashboard The FAIRshake tool rubric
no (0.00) yes (1.00) no (0.00) nobut (0.25) no (0.00) no (0.00) yesbut (0.75) yesbut (0.75) no (0.00)                                             Mar 3, 2022