Jupyter notebook-based tools for building structured datasets from the Sequence Read Archive is a dataset published in F1000Research (2020). On theSindex it has a DataRank of 1.0, placing it in the top 19.9% of the data-sharing corpus. It has been cited 11 times, with 10 citing works in its 1-hop citation network. Its calibrated FAIR score is 46/100.
Ranks in the top 20% for downstream scientific impact
Linked data & code
DataRank reads this dataset's downstream impact straight off the citation graph — no black box, no proprietary weighting. How is this computed?
FAIR checklist signals are shown for context only and do not affect DataRank scoring.
Full FAIR picture · advisory
The headline score is computed from the scored criteria — the fact-shaped checks (a repository, an accession, a licence) that two independent models agree on. The advisory criteria below are real FAIR guidance but rest on judgment calls that models read differently, so they inform without moving the number.
“Data availability The figures and datasets produced in the analyses can be found on GitHub: https://github.com/mbernste/hypothesis-driven-SRA- queries/tree/master/results”
The only identifier for the dataset is a GitHub URL, which is an HTTP address and not a persistent identifier scheme (DOI, Handle, ARK, or repository accession).
RDA-F1-01D — FAIR Data Maturity Model: 'Data is identified by a persistent identifier' (priorit · RDA-F1-02D — FAIR Data Maturity Model: 'Data is identified by a globally unique identifier' · FsF-F1-02D — F-UJI/FAIRsFAIR: 'Data is assigned a persistent identifier'
“Data availability The figures and datasets produced in the analyses can be found on GitHub: https://github.com/mbernste/hypothesis-driven-SRA- queries/tree/master/results”
GitHub is a named host, but it is not a curated data repository (e.g., GEO, Zenodo) and is therefore a non-repository host.
RDA-F4-01M — FAIR Data Maturity Model: metadata is offered so it can be harvested and indexed ( · NIH DMS Policy Element 4 (NOT-OD-21-014) — name the repository where data will be archived · NSTC Desirable Characteristics of Data Repositories (2022) — 'Long-Term Sustainability', 'Reten
“Data availability The figures and datasets produced in the analyses can be found on GitHub: https://github.com/mbernste/hypothesis-driven-SRA- queries/tree/master/results”
The dataset identifier (GitHub URL) appears in the body text of the Data availability section, not as a reference-list entry.
FORCE11 Joint Declaration of Data Citation Principles (2014) — data should be cited as a first- · RDA-F3-01M — metadata clearly and explicitly includes the identifier of the data it describes · FsF-F3-01M — F-UJI: 'Metadata includes the identifier of the data it describes'
Advisory · not in the published score
“Data availability The figures and datasets produced in the analyses can be found on GitHub: https://github.com/mbernste/hypothesis-driven-SRA- queries/tree/master/results”
The data-availability statement points to a GitHub repository, which is a public repository but not a repository record with an accession or persistent identifier; therefore it is a partial match. [majority verdict 'partial' (4/5 passes agreed)]
Colavizza, Hrynaszkiewicz, Staden, Whitaker & McGillivray (2020), 'The citation advantage of li · Springer Nature research data policy — Data Availability Statements: standard statement templat · RDA-F3-01M — metadata clearly and explicitly includes the identifier of the data it describes
The paper does not provide an itemized inventory of the dataset's files, variables, or samples; it only mentions that the figures and datasets are on GitHub.
RDA-F2-01M — 'Rich metadata is provided to allow discovery' (priority Essential) · FsF-F2-01M — F-UJI: 'Metadata includes descriptive core elements to support data findability' · FsF-R1-01MD — F-UJI: 'Metadata specifies the content of the data'
“Data availability The figures and datasets produced in the analyses can be found on GitHub: https://github.com/mbernste/hypothesis-driven-SRA- queries/tree/master/results”
The paper gives a direct URL to the data on GitHub with no stated precondition, making it openly accessible.
RDA-A1.1-01D — 'Data is accessible through a free access protocol' · FsF-A1-01M — F-UJI: 'Metadata contains access level and access conditions of the data' · NSTC Desirable Characteristics of Data Repositories (2022) — 'Free and Easy Access'
Advisory · not in the published score
“The figures and datasets produced in the analyses can be found on GitHub: https://github.com/mbernste/hypothesis-driven-SRA- queries/tree/master/results”
The text describes an action (can be found on GitHub) from which access level must be inferred, without an explicit access-level label. [majority verdict 'partial' (4/5 passes agreed)]
FsF-A1-01M — F-UJI: 'Metadata contains access level and access conditions of the data' · RDA-A1-01M — metadata contains information to enable the user to get access to the data · COAR Controlled Vocabularies — Access Rights v1.0 (open / embargoed / restricted / metadata-onl
The paper does not mention any gatekeeper because the data are not sensitive human-subject data; no access control is described.
NIH Genomic Data Sharing Policy (NOT-OD-14-124) — controlled-access via a Data Access Committee · RDA-A1.2-01D — 'Data is accessible through an access protocol that supports authentication and · NIH DMS Policy Element 5 (NOT-OD-21-014) — Access, Distribution, or Reuse Considerations (conse
The paper does not state any retention period or availability timing for the data; it only says the data can be found on GitHub. [majority verdict 'no' (4/5 passes agreed)]
NIH DMS Plan Element 4 (NOT-OD-21-014) — Data Preservation, Access, and Associated Timelines · NSTC Desirable Characteristics (2022), Organizational Infrastructure: 'Retention Policy' · RDA-A2-01M — 'Metadata is guaranteed to remain available after data is no longer available'
The paper does not name any file format for the released data (figures and datasets).
FsF-R1.3-02D — F-UJI: 'Data is available in a file format recommended by the target research co · RDA-R1.3-02D — data is expressed in a machine-understandable community standard · RDA-I1-01D — data uses a knowledge representation expressed in a standardised format
Advisory · not in the published score
The paper applies no community data or metadata standard to its own dataset; it mentions ontologies used by MetaSRA, but not for the released data.
RDA-R1.3-01M — 'Metadata complies with a community standard' (priority Essential) · RDA-R1.3-01D — 'Data complies with a community standard' · RDA-I2-01M — '(Meta)data use vocabularies that follow FAIR principles'
“Archived code as at time of publication: https://doi.org/10.5281/zenodo.3957949 (Bernstein, 2020)”— not found in the paper; verdict downgraded
The paper provides a DOI for the archived code, which is a resource other than the dataset itself, meeting the requirement for an identifier of a related resource. [downgraded to 'no' — no verifiable quote from the paper] [majority verdict 'no' (3/5 passes agreed)]
RDA-I3-01M — '(meta)data include references to other (meta)data' · RDA-I3-03M — 'metadata includes qualified references to other metadata' · FsF-I3-01M — F-UJI: 'Metadata includes links between the data and its related entities'
The paper only licenses the software (CC0) and the article (CC BY), but does not attach any reuse license to the dataset itself.
RDA-R1.1-01M — 'Metadata includes information about the licence under which the data can be reu · RDA-R1.1-02M — 'Metadata refers to a standard reuse licence' · RDA-R1.1-03M — 'Metadata refers to a machine-understandable reuse licence'
The paper does not provide a version token or a date for the snapshot of the data; the data are referred to as a live GitHub repository.
DataCite Metadata Schema 4.6 — the 'Version' property · RDA-R1.2-01M — provenance information (which version was used is provenance) · NSTC Desirable Characteristics of Data Repositories (2022) — 'Provenance', 'Retention Policy'
“Archived code as at time of publication: https://doi.org/10.5281/zenodo.3957949 (Bernstein, 2020)”— not found in the paper; verdict downgraded
The paper provides a DOI for the archived code, which is a machine-resolvable locator for the study's own code. [downgraded to 'partial' — no verifiable quote from the paper] [majority verdict 'partial' (4/5 passes agreed)]
NIH DMS Policy Element 2 (NOT-OD-21-014) — 'Related Tools, Software and/or Code' · FAIR4RS Principles v1.0 (Chue Hong et al., 2022; RDA/FORCE11/ReSA) — FAIR Principles for Resear · FORCE11 Software Citation Principles (Smith, Katz & Niemeyer, 2016, PeerJ CS 2:e86)
“Matthew Bernstein acknowledges support from grant 2018-182626 from the Chan Zuckerberg Initiative DAF”
The paper includes a specific grant number (2018-182626) attached to a named funder, meeting the requirement for an award identifier.
DataCite Metadata Schema 4.6 — 'FundingReference' property (funderName, funderIdentifier, award · Crossref Funder Registry — canonical funder identifiers for funding metadata · RDA-F2-01M — rich metadata provided to allow discovery (funding is part of the descriptive reco
Advisory · not in the published score
The paper does not name specific instruments, platforms, kits, or software versions used to produce its own data (the figures and datasets). [majority verdict 'no' (2/5 passes agreed)]
RDA-R1.2-01M — 'Metadata includes provenance information according to community- specific standa · FsF-R1.2-01M — F-UJI: 'Metadata includes provenance information about data creation or generati · W3C PROV-O (W3C Recommendation, 2013) — the entity/activity/agent model of provenance
The paper does not mention any documentation object (README, codebook) shipped with the data, nor does it provide a variable-definition table inside the article.
RDA-R1-01M — '(Meta)data are richly described with a plurality of accurate and relevant attribu · FsF-R1-01MD — F-UJI: 'Metadata specifies the content of the data' · NIH DMS Policy Element 3 (NOT-OD-21-014) — Standards (documentation and metadata to accompany t
Calibrated FAIR score — a parallel quality metric, independent of the DataRank citation score. See the full evaluation →
Base Score Contribution
0.373
From this paper's citation signal
Citation Network Contribution
0.646
From 8 citing papers with measurable signal
Ranked by each citer's contribution to N(p) — log1p(Cq) divided by its reference count — out of 10 citers.
Chan Zuckerberg Initiative
Grant: 2018-182626
National Library of Medicine, National Institutes of Health
FWCI
0.75
Citation Percentile
0.7%
Citation Trend
Fields of Study
MeSH Terms
Keywords
Sustainable Development Goals
Additional file 4 of STAT: a fast, scalable, MinHash-based k-mer tool to assess Sequence Read Archive next-generation sequence submissions
Additional file 4 of STAT: a fast, scalable, MinHash-based k-mer tool to assess Sequence Read Archive next-generation sequence submissions