4DN data nucleome Datafile Rubric

A rubric for assessing 4DN (https://data.4dnucleome.org) metadata file. The rubric is to evaluate the Datafile object that may include different formats of file like fastq, FOF CT files, bam, etc on 4dn nucleome data portal - https://data.4dnucleome.org

Tags: 4DN

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Rubric Assessments (4)


Assessment Metrics Date
Target Project   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. describes the file type A relevant file type is present and resolvable in the EDAM Ontology
FOF-CT - DNA-spot/trace Core File for Chromatin tracing of chrX in IMR90 4DN data portal
yes (1.00) yes (1.00) yes (1.00) yes (1.00) yes (1.00) no (0.00) yes (1.00) yes (1.00) yes (1.00) yes (1.00) Nov 8, 2023
Contact Matrix dataset file 4DN data portal
yes (1.00) yes (1.00) yes (1.00) yes (1.00) yes (1.00) no (0.00) yes (1.00) yes (1.00) yes (1.00) no (0.00) Jun 20, 2024
Contact Matrix dataset file 4DN data portal
                    Jun 21, 2024
Contact matrix mcool file output file of the Hi-C processing pipeline 4DN data portal
yes (1.00) yes (1.00) yes (1.00) yes (1.00) yes (1.00) nobut (0.25) yes (1.00) yes (1.00) yes (1.00) nobut (0.25) Dec 12, 2024