globalbioticinteractions / elton

Access, review and index existing species interaction datasets
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Dataset review document template suggestions #56

Open seltmann opened 1 year ago

seltmann commented 1 year ago

@jhpoelen, here are a few report suggestions that may be able to be incorporated into the review document template.


title: A Review of Biotic Interactions Found in globalbioticinteractions/ucsb-izc 
date: 2023-08-23
author: By Nomer and Elton, two naive review bots, & **<associatedParty><individualName><userId>**
abstract: |
  This is a data review and dataset archive from the <collectionName>. The full Darwin Core Archive is linked to this publication as <name of file>. The data review is focused on taxon name alignment, and understanding biotic interactions found in the dataset. We describe a review process of such an openly accessible digital interaction datasets of known origin, and discuss their outcome. The dataset under review (aka globalbioticinteractions/ucsb-izc) contains 1,951 interactions with 8 (e.g., interactsWith) unique types of associations between 376 primary taxa (e.g., Apis mellifera) and 376 associated taxa (e.g., Lupinus bicolor). The report includes detailed summaries of interactions data as well as a taxonomic review from multiple perspectives.
bibliography: biblio.bib
reference-section-title: References
---

# Introduction
## Dataset
If Darwin Core Archive, extract .eml from meta.xml
~~~
<abstract>
<para><p>This is the University of California Santa Barbara Invertebrate Zoology Collection, Cheadle Center for Biodiversity and Ecological Restoration. Contributions to data in this collection come from Elaine Tan (https://orcid.org/0000-0002-0504-4067), Rachel Behm (https://orcid.org/0000-0001-7264-3492) and Zach Brown. The data is archived at <a href="https://doi.org/10.5281/zenodo.5660088">https://doi.org/10.5281/zenodo.5660088</a>.</p> <p><a href="https://doi.org/10.5281/zenodo.5660088"><img src="https://zenodo.org/badge/DOI/10.5281/zenodo.5660088.svg" alt="DOI" /></a></p></para>
</abstract>

**More information: <onlineUrl>https://www.ccber.ucsb.edu/collections/zoological/arthropods</onlineUrl>
<resourceLogoUrl>https://serv.biokic.asu.edu/ecdysis/content/collicon/ucsb-izc.png</resourceLogoUrl>**

~~~

<pubDate>2023-08-25</pubDate>

Provider information: <organizationName>Ecdysis Portal</organizationName>

Live data link: <alternateIdentifier>https://ecdysis.org/collections/misc/collprofiles.php?collid=38</alternateIdentifier>

<intellectualRights>http://creativecommons.org/publicdomain/zero/1.0/</intellectualRights>

## Data review process
Data review can be a time consuming process, especially when done manually. This review report aims to help facilitate data review of species interaction claims made in datasets registered with Global Biotic Interactions [@Poelen_2014]. The review includes summary statistics of, and observations about, the dataset under review:

~~~
University of California Santa Barbara Invertebrate Zoology Collection https://github.com/globalbioticinteractions/ucsb-izc/archive/66a4e39589d1dfa299d07985546c4be522ff60d8.zip 2023-08-20T11:40:40.811Z 44d08ad1c9129a1d7586832e78e02adbbe2709f9c6eaf75d1cbf160d9e150581
~~~

# Methods
Data is first accessed from a published Darwin Core Archive file, and linked through GitHub at <https://github.com/globalbioticinteractions/ucsb-izc>
``
seltmann commented 1 year ago

also suggest a change in title:

Versioned archive of datasets shared by the {University of California Santa Barbara Invertebrate Zoology Collection}, including a Review of Biotic Interactions and Taxon Names Found within the Darwin Core Archive.

jhpoelen commented 1 year ago

How to cite the DwC-A (or other datasets under review) in the review report?

Include as bibtex entry, so that it shows up in the "References" section?

Something like mentioned below, but then citing the dwc-a download, date accessed, content ids (md5 / sha256)

@misc{trekels_maarten_2023_8176978,
  author       = {Trekels, Maarten and
                  Pignatari Drucker, Debora and
                  Salim, José Augusto and
                  Ollerton, Jeff and
                  Poelen, Jorrit and
                  Miranda Soares, Filipi and
                  Rünzel, Max and
                  Kasina, Muo and
                  Groom, Quentin and
                  Devoto, Mariano},
  title        = {{WorldFAIR Project (D10.1) Agriculture-related 
                   pollinator data standards use cases report}},
  month        = jul,
  year         = 2023,
  publisher    = {Zenodo},
  version      = 1,
  doi          = {10.5281/zenodo.8176978},
  url          = {https://doi.org/10.5281/zenodo.8176978}
}
jhpoelen commented 1 year ago

In most recent version, the title is updated, and a dataset section in the introduction is added when a darwin core archive with eml.xml is present.

image

image

see also attached.

review-report.zip