rOpenSci tools to access academic literature

[stefaniebutland]

Who is the audience?

Who might want to know this? What other groups or organizations might be interested?

Seems like this one might have broad interest. Curious to hear who.

• researchers
• librarians
• people in pharmaceutical or health industries
• journals, arxivs
• orgs for which rOpenSci has packages
  • CrossRef, ORCID, PLOS, Europe PubMed Central, BiomedCentral, arXiv, medRxiv, bioRxiv, JSTOR, IEEE Xplore, Open Archives Initiative

Why is this important?

What should be covered?

• metadata (crossref, orcid etc)
• full text data
• citation data?

Suggested speakers or contributors

• @sckott, since he has developed many of these tools, people sharing use cases, maybe some of the authors of posts below

Resources you would recommend to the audience

From rOpenSci:

• Literature category of rOpenSci Packages
• fulltext: Behind the Scenes, by Scott Chamberlain
• Searching medRxiv and bioRxiv Preprint Data, by Luke McGuinness @mcguinlu
• Covidpreprints.com: Automating Website Updates with the europepmc and rAltmetric Packages, by Zhang-He Goh, Jonny Coates, Hugo Gruson @Bisaloo
• pubchunks: extract parts of scholarly XML articles, by Scott Chamberlain
• citecorp: working with open citations, by Scott Chamberlain
• see "Querying the scientific literature" in What have these birds been studied for? Querying science outputs with R, by Maëlle Salmon

[mcguinlu]

Happy to contribute to this, if I can be of any help!

[stefaniebutland]

Thank you @mcguinlu! I'm planning a couple of community calls to happen before this one but will ping you when the time comes.

[jananiravi]

New to the development arena, but an enthusiastic user! Happy to contribute in any way I can. I am looking forward to this community call.

[maelle]

Note that fulltext has been archived.

[sheilarabun]

Hi all - I was going to propose a new topic, but saw this one and I think it fits well with what I want to propose. I am the program manager for the ORCID US Community, a consortium of ~200 non-profit orgs that are ORCID members in the US. Just recently, we worked with two fellows (@ogiven and @negeena) to create an R script (based on work by @sckott and @ciakovx) that retrieves all of the public ORCID iDs for current employees at a research organization, retrieves the Crossref DOIs from the works listed in those ORCID records, and then gets co-author info from Crossref DOI metadata. The output is a CSV file that can be loaded into a Tableau Public dashboard template to create a visualization/map of publication collaborations. For example, here is the map for Caltech for 2022: https://public.tableau.com/app/profile/sheila6994/viz/Caltech/Fullvisualization#1.

The idea is that anyone can use these resources to create a publication collaboration map for their own institution.

We would love others to use our script as is and provide feedback and/or make improvements (such as adding the ability to also include DataCite DOI metadata) or other adaptations. Would love to speak about this at the community call, if it's of interest. Our project info page is here: https://orcidus.lyrasis.org/data-visualization/ and the script and documentation is here: https://github.com/lyrasis/ORCID-Data-Visualization. Thank you!

[rkrug]

I am missing openalexR here - I am using it daily for a variety of literature searches. I think it is brilliant!