2025-04-10
Life on Earth is sustained by complex interactions between organisms and their environment. These biotic interactions can be captured in datasets and published digitally. We present a review and archiving process for such an openly accessible digital interactions dataset of known origin and discuss its outcome. The dataset under review, named globalbioticinteractions/bergamo2020, has fingerprint hash://md5/72a89ba13fb500e2747d777d36d3a112, is 81.0KiB in size and contains 0 interaction with 0 unique type of association (e.g., ) between 0 primary taxon (e.g., ) and 0 associated taxon (e.g., ). This report includes detailed summaries of interaction data, a taxonomic review from multiple catalogs, and an archived version of the dataset from which the reviews are derived.
Data review and archiving can be a time-consuming process, especially when done manually. This review report aims to help facilitate both activities. It automates the archiving of datasets, including Darwin Core archives, and is a citable backup of a version of the dataset. Additionally, an automatic review of species interaction claims made in the dataset is generated and registered with Global Biotic Interactions (J. H. Poelen, Simons, and Mungall 2014).
This review includes summary statistics about, and observations about, the dataset under review:
hash://md5/72a89ba13fb500e2747d777d36d3a112
For additional metadata related to this dataset, please visit https://github.com/globalbioticinteractions/bergamo2020 and inspect associated metadata files including, but not limited to, README.md, eml.xml, and/or globi.json.
The review is performed through programmatic scripts that leverage tools like Preston (Elliott et al. 2025), Elton (Kuhn, Poelen, and Leinweber 2025), Nomer (Salim and Poelen 2025), globinizer (J. Poelen, Seltmann, and Mietchen 2024) combined with third-party tools like grep, mlr, tail and head.
| tool name | version |
|---|---|
| preston | 0.10.1 |
| elton | 0.15.9 |
| nomer | 0.5.13 |
| globinizer | 0.4.0 |
| mlr | 6.0.0 |
| jq | 1.6 |
| yq | 4.25.3 |
| pandoc | 3.1.6.1 |
The review process can be described in the form of the script below 1.
# get versioned copy of the dataset (size approx. 81.0KiB) under review
elton pull globalbioticinteractions/bergamo2020
# generate review notes
elton review globalbioticinteractions/bergamo2020\
> review.tsv
# export indexed interaction records
elton interactions globalbioticinteractions/bergamo2020\
> interactions.tsv
# export names and align them with the Catalogue of Life using Nomer
elton names globalbioticinteractions/bergamo2020\
| nomer append col\
> name-alignment.tsvor visually, in a process diagram.
You can find a copy of the full review script at check-data.sh. See also GitHub and Codeberg.
In the following sections, the results of the review are summarized 2. Then, links to the detailed review reports are provided.
The following files are produced in this review:
| filename | description |
|---|---|
| biblio.bib | list of bibliographic reference of this review |
| check-dataset.sh | data review workflow/process as expressed in a bash script |
| data.zip | a versioned Preston (Elliott et al. 2025) archive of the data under review |
| HEAD | the digital signature of the data under review |
| index.docx | review in MS Word format |
| index.html | review in HTML format |
| index.md | review in Pandoc markdown format |
| index.pdf | review in PDF format |
| indexed-citations.csv.gz | list of distinct reference citations for reviewed species interaction claims in gzipped comma-separated values file format |
| indexed-citations.html.gz | list of distinct reference citations for reviewed species interactions claims in gzipped html file format |
| indexed-citations.tsv.gz | list of distinct reference citations for reviewed species interaction claims in gzipped tab-separated values format |
| indexed-interactions-col-family-col-family.svg | network diagram showing the taxon family to taxon family interaction claims in the dataset under review as interpreted by the Catalogue of Life via Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) |
| indexed-interactions-col-kingdom-col-kingdom.svg | network diagram showing the taxon kingdom to taxon kingom interaction claims in the dataset under review as interpreted by the Catalogue of Life via Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) |
| indexed-interactions.csv.gz | species interaction claims indexed from the dataset under review in gzipped comma-separated values format |
| indexed-interactions.html.gz | species interaction claims indexed from the dataset under review in gzipped html format |
| indexed-interactions.tsv.gz | species interaction claims indexed from the dataset under review in gzipped tab-separated values format |
| indexed-interactions-sample.csv | list of species interaction claims indexed from the dataset under review in gzipped comma-separated values format |
| indexed-interactions-sample.html | first 500 species interaction claims indexed from the dataset under review in html format |
| indexed-interactions-sample.tsv | first 500 species interaction claims indexed from the dataset under review in tab-separated values format |
| indexed-names.csv.gz | taxonomic names indexed from the dataset under review in gzipped comma-separated values format |
| indexed-names.html.gz | taxonomic names found in the dataset under review in gzipped html format |
| indexed-names.tsv.gz | taxonomic names found in the dataset under review in gzipped tab-separated values format |
| indexed-names-resolved-col.csv.gz | taxonomic names found in the dataset under review aligned with the Catalogue of Life as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped comma-separated values format |
| indexed-names-resolved-col.html.gz | taxonomic names found in the dataset under review aligned with the Catalogue of Life as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped html format |
| indexed-names-resolved-col.tsv.gz | taxonomic names found in the dataset under review aligned with the Catalogue of Life as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped tab-separated values format |
| indexed-names-resolved-discoverlife.csv.gz | taxonomic names found in the dataset under review aligned with Discover Life bee species checklist as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped comma-separated values format |
| indexed-names-resolved-discoverlife.html.gz | taxonomic names found in the dataset under review aligned with Discover Life bee species checklist as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped html format |
| indexed-names-resolved-discoverlife.tsv.gz | taxonomic names found in the dataset under review aligned with Discover Life bee species checklist as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped tab-separated values format |
| indexed-names-resolved-gbif.csv.gz | taxonomic names found in the dataset under review aligned with GBIF Backbone Taxonomy as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped comma-separated values format |
| indexed-names-resolved-gbif.html.gz | taxonomic names found in the dataset under review aligned with GBIF Backbone Taxonomy as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped html format |
| indexed-names-resolved-gbif.tsv.gz | taxonomic names found in the dataset under review aligned with GBIF Backbone Taxonomy as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped tab-separated values format |
| indexed-names-resolved-itis.csv.gz | taxonomic names found in the dataset under review aligned with Integrated Taxonomic Information System (ITIS) as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped comma-separated values format |
| indexed-names-resolved-itis.html.gz | taxonomic names found in the dataset under review aligned with Integrated Taxonomic Information System (ITIS) as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped html format |
| indexed-names-resolved-itis.tsv.gz | taxonomic names found in the dataset under review aligned with Integrated Taxonomic Information System (ITIS) as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped tab-separated values format |
| indexed-names-resolved-mdd.csv.gz | taxonomic names found in the dataset under review aligned with the Mammal Diversity Database as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped comma-separated values format |
| indexed-names-resolved-mdd.html.gz | taxonomic names found in the dataset under review aligned with Mammal Diversity Database as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped html format |
| indexed-names-resolved-mdd.tsv.gz | taxonomic names found in the dataset under review aligned with Mammal Diversity Database as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped tab-separated values format |
| indexed-names-resolved-ncbi.csv.gz | taxonomic names found in the dataset under review aligned with the NCBI Taxonomy as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped comma-separated values format |
| indexed-names-resolved-ncbi.html.gz | taxonomic names found in the dataset under review aligned with the NCBI Taxonomy as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped html format |
| indexed-names-resolved-ncbi.tsv.gz | taxonomic names found in the dataset under review aligned with the NCBI Taxonomy as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped tab-separated values format |
| indexed-names-resolved-pbdb.csv.gz | taxonomic names found in the dataset under review aligned with the Paleobiology Database as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped comma-separated values format |
| indexed-names-resolved-pbdb.html.gz | taxonomic names found in the dataset under review aligned with Paleobiology Database as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped html format |
| indexed-names-resolved-pbdb.tsv.gz | taxonomic names found in the dataset under review aligned with Paleobiology Database as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped tab-separated values format |
| indexed-names-resolved-tpt.csv.gz | taxonomic names found in the dataset under review aligned with the Terrestrial Parasite Tracker (TPT) Taxonomic Resource as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped comma-separated values format |
| indexed-names-resolved-tpt.html.gz | taxonomic names found in the dataset under review aligned with the Terrestrial Parasite Tracker (TPT) Taxonomic Resource as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped html format |
| indexed-names-resolved-tpt.tsv.gz | taxonomic names found in the dataset under review aligned with the Terrestrial Parasite Tracker (TPT) Taxonomic Resource as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped tab-separated values format |
| indexed-names-resolved-wfo.csv.gz | taxonomic names found in the dataset under review aligned with the World of Flora Online as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped comma-separated values format |
| indexed-names-resolved-wfo.html.gz | taxonomic names found in the dataset under review aligned with the World of Flora Online as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped html format |
| indexed-names-resolved-wfo.tsv.gz | taxonomic names found in the dataset under review aligned with the World of Flora Online as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped tab-separated values format |
| indexed-names-resolved-worms.csv.gz | taxonomic names found in the dataset under review aligned with the World Register of Marine Species (WoRMS) as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped comma-separated values format |
| indexed-names-resolved-worms.html.gz | taxonomic names found in the dataset under review aligned with the World Register of Marine Species (WoRMS) as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped html format |
| indexed-names-resolved-worms.tsv.gz | taxonomic names found in the dataset under review aligned with the World Register of Marine Species (WoRMS) as accessed through the Nomer Corpus of Taxonomic Resources (J. H. (ed. ). Poelen 2024) in gzipped tab-separated values format |
| indexed-names-sample.csv | first 500 taxonomic names found in the dataset under review in comma-separated values format |
| indexed-names-sample.html | first 500 taxonomic names found in the dataset under review in html format |
| indexed-names-sample.tsv | first 500 taxonomic names found in the dataset under review in tab-separated values format |
| interaction.svg | diagram summarizing the data model used to index species interaction claims |
| nanopub-sample.trig | first 500 species interaction claims as expressed in the nanopub format (Kuhn and Dumontier 2014) |
| nanopub.trig.gz | species interaction claims as expressed in the nanopub format (Kuhn and Dumontier 2014) |
| process.svg | diagram summarizing the data review processing workflow |
| prov.nq | origin of the dataset under review as expressed in rdf/nquads |
| review.csv.gz | review notes associated with the dataset under review in gzipped comma-separated values format |
| review.html.gz | review notes associated with the dataset under review in gzipped html format |
| review.tsv.gz | review notes associated with the dataset under review in gzipped tab-separated values format |
| review-sample.csv | first 500 review notes associated with the dataset under review in comma-separated values format |
| review-sample.html | first 500 review notes associated with the dataset under review in html format |
| review-sample.tsv | first 500 review notes associated with the dataset under review in tab-separated values format |
| review.svg | a review badge generated as part of the dataset review process |
| zenodo.json | metadata of this review expressed in Zenodo record metadata |
Note that data.zip file in this archive contains the complete, unmodified archived dataset under review.
In this review, biotic interactions (or biotic associations) are modeled as a primary (aka subject, source) organism interacting with an associate (aka object, target) organism. The dataset under review classified the primary/associate organisms with specific taxa. The primary and associate organisms The kind of interaction is documented as an interaction type.
The dataset under review, named globalbioticinteractions/bergamo2020, has fingerprint hash://md5/72a89ba13fb500e2747d777d36d3a112, is 81.0KiB in size and contains 0 interaction with 0 unique type of association (e.g., ) between 0 primary taxon (e.g., ) and 0 associated taxon (e.g., ).
An exhaustive list of indexed interaction claims can be found in gzipped csv and tsv archives. To facilitate discovery, a preview of claims available in the gzipped html page at indexed-interactions.html.gz are shown below.
The exhaustive list was used to create the following data summaries below.
: Sample of Indexed Interaction Claims
: Most Frequently Mentioned Interaction Types (up to 20 most frequent)
: Most Frequently Mentioned Primary Taxa (up to 20 most frequent)
: Most Frequently Mentioned Associate Taxa (up to 20 most frequent)
: Most Frequent Interactions between Primary and Associate Taxa (up to 20 most frequent)
The figures below provide a graph view on the dataset under review. The first shows a summary network on the kingdom level, and the second shows how interactions on the family level. It is important to note that both network graphs were first aligned taxonomically using the Catalogue of Life. Please refer to the original (or verbatim) taxonomic names for a more original view on the interaction data.
You can download the indexed dataset under review at indexed-interactions.csv.gz. A tab-separated file can be found at indexed-interactions.tsv.gz
Learn more about the structure of this download at GloBI website, by opening a GitHub issue, or by sending an email.
Another way to discover the dataset under review is by searching for it on the GloBI website.
As part of the review, all names are aligned against various name catalogs (e.g., col, ncbi, discoverlife, gbif, itis, wfo, mdd, tpt, pbdb, and worms). These alignments can help review name usage or aid in selecting of a suitable taxonomic name resource.
: Sample of Name Alignments
: Distribution of Taxonomic Ranks of Aligned Names by Catalog. Names that were not aligned with a catalog are counted as NAs. So, the total number of unaligned names for a catalog will be listed in their NA row.
| catalog name | alignment results |
|---|---|
| col | associated names alignments report in gzipped html, csv, and tsv) |
| ncbi | associated names alignments report in gzipped html, csv, and tsv) |
| discoverlife | associated names alignments report in gzipped html, csv, and tsv) |
| gbif | associated names alignments report in gzipped html, csv, and tsv) |
| itis | associated names alignments report in gzipped html, csv, and tsv) |
| wfo | associated names alignments report in gzipped html, csv, and tsv) |
| mdd | associated names alignments report in gzipped html, csv, and tsv) |
| tpt | associated names alignments report in gzipped html, csv, and tsv) |
| pbdb | associated names alignments report in gzipped html, csv, and tsv) |
| worms | associated names alignments report in gzipped html, csv, and tsv) |
: List of Available Name Alignment Reports
Elton, Nomer, and other tools may have difficulties interpreting existing species interaction datasets. Or, they may misbehave, or otherwise show unexpected behavior. As part of the review process, detailed review notes are kept that document possibly misbehaving, or confused, review bots. An sample of review notes associated with this review can be found below.
| reviewDate | reviewCommentType | reviewComment |
|---|---|---|
| 2025-04-10T07:10:26Z | note | [problem importing from [https://github.com/globalbioticinteractions/bergamo2020/archive/0cfb480f338fc0d3f8545c4ee28a3326445c7f19.zip]] Caused by: java.io.IOException: resource [https://docs.google.com/spreadsheets/d/1NQ8MBY8qHJJp9ogtfYRnPC0c3cZF9IySHJIQXIA_Asg/export?format=tsv&id=1NQ8MBY8qHJJp9ogtfYRnPC0c3cZF9IySHJIQXIA_Asg&gid=359918449] not found at [https://docs.google.com/spreadsheets/d/1NQ8MBY8qHJJp9ogtfYRnPC0c3cZF9IySHJIQXIA_Asg/export?format=tsv&id=1NQ8MBY8qHJJp9ogtfYRnPC0c3cZF9IySHJIQXIA_Asg&gid=359918449] at org.globalbioticinteractions.cache.CacheProxyForDataset.retrieve(CacheProxyForDataset.java:37) at org.globalbioticinteractions.dataset.DatasetWithCache.retrieve(DatasetWithCache.java:35) at org.globalbioticinteractions.dataset.DatasetProxy.retrieve(DatasetProxy.java:29) at org.globalbioticinteractions.dataset.DatasetProxy.retrieve(DatasetProxy.java:29) at org.globalbioticinteractions.dataset.DatasetProxy.retrieve(DatasetProxy.java:29) at org.eol.globi.data.DatasetImporterForMetaTable$TableParserFactoryImpl.createParser(DatasetImporterForMetaTable.java:539) at org.eol.globi.data.DatasetImporterForMetaTable.importTable(DatasetImporterForMetaTable.java:218) at org.eol.globi.data.DatasetImporterForMetaTable.importStudy(DatasetImporterForMetaTable.java:86) at org.eol.globi.util.DatasetImportUtil.importDataset(DatasetImportUtil.java:70) at org.globalbioticinteractions.elton.cmd.CmdReview.review(CmdReview.java:248) at org.globalbioticinteractions.elton.cmd.CmdReview.reviewLocal(CmdReview.java:201) at org.globalbioticinteractions.elton.cmd.CmdReview.doRun(CmdReview.java:159) at org.globalbioticinteractions.elton.cmd.CmdDefaultParams.run(CmdDefaultParams.java:223) at org.globalbioticinteractions.elton.cmd.CmdTabularWriterParams.run(CmdTabularWriterParams.java:12) at picocli.CommandLine.executeUserObject(CommandLine.java:1939) at picocli.CommandLine.access1300(CommandLine.java:145)atpicocli.CommandLineRunLast.executeUserObjectOfLastSubcommandWithSameParent(CommandLine.java:2358) at picocli.CommandLineRunLast.handle(CommandLine.java:2352)atpicocli.CommandLineRunLast.handle(CommandLine.java:2314) at picocli.CommandLineAbstractParseResultHandler.execute(CommandLine.java:2179)atpicocli.CommandLineRunLast.execute(CommandLine.java:2316) at picocli.CommandLine.execute(CommandLine.java:2078) at org.globalbioticinteractions.elton.Elton.run(Elton.java:101) at org.globalbioticinteractions.elton.Elton.main(Elton.java:92) |
| 2025-04-10T07:10:26Z | note | |
| 2025-04-10T07:10:26Z | summary | 0 interaction(s) |
| 2025-04-10T07:10:26Z | summary | 2 note(s) |
In addition, you can find the most frequently occurring notes in the table below.
| reviewComment | count |
|---|---|
| [problem importing from [https://github.com/globalbioticinteractions/bergamo2020/archive/0cfb480f338fc0d3f8545c4ee28a3326445c7f19.zip]] Caused by: java.io.IOException: resource [https://docs.google.com/spreadsheets/d/1NQ8MBY8qHJJp9ogtfYRnPC0c3cZF9IySHJIQXIA_Asg/export?format=tsv&id=1NQ8MBY8qHJJp9ogtfYRnPC0c3cZF9IySHJIQXIA_Asg&gid=359918449] not found at [https://docs.google.com/spreadsheets/d/1NQ8MBY8qHJJp9ogtfYRnPC0c3cZF9IySHJIQXIA_Asg/export?format=tsv&id=1NQ8MBY8qHJJp9ogtfYRnPC0c3cZF9IySHJIQXIA_Asg&gid=359918449] at org.globalbioticinteractions.cache.CacheProxyForDataset.retrieve(CacheProxyForDataset.java:37) at org.globalbioticinteractions.dataset.DatasetWithCache.retrieve(DatasetWithCache.java:35) at org.globalbioticinteractions.dataset.DatasetProxy.retrieve(DatasetProxy.java:29) at org.globalbioticinteractions.dataset.DatasetProxy.retrieve(DatasetProxy.java:29) at org.globalbioticinteractions.dataset.DatasetProxy.retrieve(DatasetProxy.java:29) at org.eol.globi.data.DatasetImporterForMetaTable$TableParserFactoryImpl.createParser(DatasetImporterForMetaTable.java:539) at org.eol.globi.data.DatasetImporterForMetaTable.importTable(DatasetImporterForMetaTable.java:218) at org.eol.globi.data.DatasetImporterForMetaTable.importStudy(DatasetImporterForMetaTable.java:86) at org.eol.globi.util.DatasetImportUtil.importDataset(DatasetImportUtil.java:70) at org.globalbioticinteractions.elton.cmd.CmdReview.review(CmdReview.java:248) at org.globalbioticinteractions.elton.cmd.CmdReview.reviewLocal(CmdReview.java:201) at org.globalbioticinteractions.elton.cmd.CmdReview.doRun(CmdReview.java:159) at org.globalbioticinteractions.elton.cmd.CmdDefaultParams.run(CmdDefaultParams.java:223) at org.globalbioticinteractions.elton.cmd.CmdTabularWriterParams.run(CmdTabularWriterParams.java:12) at picocli.CommandLine.executeUserObject(CommandLine.java:1939) at picocli.CommandLine.access1300(CommandLine.java:145)atpicocli.CommandLineRunLast.executeUserObjectOfLastSubcommandWithSameParent(CommandLine.java:2358) at picocli.CommandLineRunLast.handle(CommandLine.java:2352)atpicocli.CommandLineRunLast.handle(CommandLine.java:2314) at picocli.CommandLineAbstractParseResultHandler.execute(CommandLine.java:2179)atpicocli.CommandLineRunLast.execute(CommandLine.java:2316) at picocli.CommandLine.execute(CommandLine.java:2078) at org.globalbioticinteractions.elton.Elton.run(Elton.java:101) at org.globalbioticinteractions.elton.Elton.main(Elton.java:92) | 1 |
| 1 |
For additional information on review notes, please have a look at the first 500 Review Notes in html format or the download full gzipped csv or tsv archives.
As part of the review, a review badge is generated. This review badge can be included in webpages to indicate the review status of the dataset under review.
Note that if the badge is green, no review notes were generated. If the badge is yellow, the review bots may need some help with interpreting the species interaction data.
If the dataset under review has been registered with GloBI, and has been succesfully indexed by GloBI, the GloBI Index Status Badge will turn green. This means that the dataset under review was indexed by GloBI and is available through GloBI services and derived data products.
If you’d like to keep track of reviews or index status of the dataset under review, please visit GloBI’s dataset index 5 for badge examples.
This review and archive provides a means of creating citable versions of datasets that change frequently. This may be useful for dataset managers, including natural history collection data managers, as a backup archive of a shared Darwin Core archive. It also serves as a means of creating a trackable citation for the dataset in an automated way, while also including some information about the contents of the dataset.
This review aims to provide a perspective on the dataset to aid in understanding of species interaction claims discovered. However, it is important to note that this review does not assess the quality of the dataset. Instead, it serves as an indication of the open-ness6 and FAIRness (Wilkinson et al. 2016; Trekels et al. 2023) of the dataset: to perform this review, the data was likely openly available, Findable, Accessible, Interoperable and Reusable. The current Open-FAIR assessment is qualitative, and a more quantitative approach can be implemented with specified measurement units.
This report also showcases the reuse of machine-actionable (meta)data, something highly recommended by the FAIR Data Principles (Wilkinson et al. 2016). Making (meta)data machine-actionable enables more precise procesing by computers, enabling even naive review bots like Nomer and Elton to interpret the data effectively. This capability is crucial for not just automating the generation of reports, but also for facilitating seamless data exchanges, promoting interoperability.
We thank the many humans that created us and those who created and maintained the data, software and other intellectual resources that were used for producing this review. In addition, we are grateful for the natural resources providing the basis for these human and bot activities. Also, thanks to https://github.com/zygoballus for helping improve the layout of the review tables.
Nomer was responsible for name alignments. Elton carried out dataset extraction, and generated the review notes. Preston tracked, versioned, and packaged, the dataset under review.