PubRef.org: Difference between revisions
m MJ1984 moved page PubRef to PubRef.org: The name PubRef originally refers to a service previously provided by PubMed: https://www.nlm.nih.gov/pubs/techbull/jf01/jf01_pubref.html |
Defunct, added references |
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{{Infobox website |
{{Infobox website |
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'''PubRef.org''' was a short lived project that is now discontinued. |
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The website is not accessible anymore. An old version can be accessed from the [[Internet Archive]].<ref name="20150929Archive" /> |
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They used the same name '''PubRef''' which was a service provided by [[PubMed]] for linking bibliographies, defeated by the independent service [[Crossref]].<ref name="PubRefDiscontinued" /> |
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'''PubRef''' was a composition and project management application used by researchers and students for [[Academic publishing#Scholarly paper|scholarly writing]] and [[Scholarly communication|communication]]. |
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==Research asset containerization== |
==Research asset containerization== |
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==Minimal example== |
==Minimal example== |
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This minimal formatting example repurposes a classic paper by Stephen Hawking and Roger Penrose ''The Singularities of Gravitational Collapse and Cosmology'' |
This minimal formatting example repurposes a classic paper by Stephen Hawking and Roger Penrose ''The Singularities of Gravitational Collapse and Cosmology'':<ref name="Hawking&Penrose" /> |
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<syntaxhighlight lang="yaml"> |
<syntaxhighlight lang="yaml"> |
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==Manuscript publishing== |
==Manuscript publishing== |
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Once the essential frontmatter meta elements have been declared, manuscripts can be automatically submitted to academic publishers.<ref name="AriesPress" /> |
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Articles, supporting data, and dependent code can be published directly on PubRef in the form of ''personal communications'' under the DOI prefix ''10.17920/P9.pubref''.<ref name="DOIprefix" /> |
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==References== |
==References== |
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<!-- Inline citations added to your article will automatically display here. See en.wikipedia.org/wiki/WP:REFB for instructions on how to add citations. --> |
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{{Reflist|refs= |
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<ref name="PubRefDiscontinued">{{cite web |title=PubRef to be Removed from PubMed — |url=https://www.nlm.nih.gov/pubs/techbull/jf01/jf01_pubref.html |accessdate=21 February 2020}}</ref> |
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<ref name="20150929Archive">{{cite web |last1=Internet Archive |title=The easiest way to compose and publish research — in science, technology, and medicine — |url=http://web.archive.org/web/20150929064823/http://pubref.org/ |website=PubRef.org |accessdate=21 February 2020}}</ref> |
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<ref name="Hawking&Penrose">{{cite journal |doi=10.1098/rspa.1970.0021 |first=Stephen |last=Hawking |last2=Penrose |first2=Roger |year=1970 |title=The Singularities of Gravitational Collapse and Cosmology |journal=[[Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences|Proceedings of the Royal Society A]] |volume=314 |issue=1519 |pages=529–548 |bibcode=1970RSPSA.314..529H}}</ref> |
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⚫ | <ref name="AriesPress">{{cite web |last1=Aries Press |title=Aries Systems and PubRef Announce Partnership Allowing Authors Direct Submission to Thousands of Scholarly Journals |url=https://www.ariessys.com/views-press/press-releases/aries-systems-and-pubref-announce-partnership-allowing-authors-direct-submission-to-thousands-of-scholarly-journals |website=Aries Systems Corporation |accessdate=21 February 2020}}</ref> |
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<ref name="DOIprefix">{{cite web |last1=California Digital Library |title=EZID Client List |url=http://ezid.cdlib.org/home/client_list |website=California Digital Library |accessdate=10 September 2015}}{{Dead link|date=February 2020}}</ref> |
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}} |
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{{reflist}} |
{{reflist}} |
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Revision as of 04:21, 21 February 2020
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URL | pubref |
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Commercial | Yes |
Launched | 2014 |
Current status | Defunct |
PubRef.org was a short lived project that is now discontinued. The website is not accessible anymore. An old version can be accessed from the Internet Archive.[1]
They used the same name PubRef which was a service provided by PubMed for linking bibliographies, defeated by the independent service Crossref.[2]
PubRef was a composition and project management application used by researchers and students for scholarly writing and communication. PubRef uses an extended form of Markdown as a primary authoring format and converts this to JATS, the archive format used by the US National Library of Medicine.
Research asset containerization
Researchers manage scholarly writing projects within version-controlled file repositories called containers that function similarly to git repositories and docker containers to provide enhanced reproducibility, transparency and re-usability in digital science publishing.
Manuscript writing
A PubRef manuscript is a Markdown file within a container that contains extra embedded information that describes the essential front matter elements of a scholarly manuscript such as the title, short title, list of authors, author affiliations, keywords. This information is captured in embedded YAML blocks within the primary manuscript called Meta. Figures, tables, equations and other special content can be similarly embedded within the context of the document via Meta descriptors.
Minimal example
This minimal formatting example repurposes a classic paper by Stephen Hawking and Roger Penrose The Singularities of Gravitational Collapse and Cosmology:[3]
# The journal meta descriptor declares what journal the
# manuscript should be submitted to.
!journal
title: Proceedings of the Royal Society of London
# The article meta descriptor defines the title, keywords, and categorization
!article
type: Original Research
title: The Singularities of Gravitational Collapse and Cosmology
# A Meta Block that describes the corresponding author.
!author
corresponding: yes
first: Stephen
last: Hawking
degrees: PhD
affiliation: cambridge
---
!author
first: Roger
last: Penrose
degrees: PhD
affiliation: birbeck
# A Meta Block that describes an organizational affiliation.
# The 'id' makes it referenceable within the document.
!affiliation id: cambridge
university: Cambridge University
institute: Institute of Theoretical Astronomy
---
!affiliation id: birbeck
college: Birbeck College
dept: Department of Mathematics
# Introduction An important feature of gravitation, for very large concentrations of mass, is that it is essentially *unstable*. This is due...
# This inserts a bibliography within the document. Citations references are
# resolved to a items in a folder named 'references', in the same directory as the
# manuscript file.
!bibliography
src: references
Manuscript publishing
Once the essential frontmatter meta elements have been declared, manuscripts can be automatically submitted to academic publishers.[4] Articles, supporting data, and dependent code can be published directly on PubRef in the form of personal communications under the DOI prefix 10.17920/P9.pubref.[5]
References
- ^ Internet Archive. "The easiest way to compose and publish research — in science, technology, and medicine —". PubRef.org. Retrieved 21 February 2020.
- ^ "PubRef to be Removed from PubMed —". Retrieved 21 February 2020.
- ^ Hawking, Stephen; Penrose, Roger (1970). "The Singularities of Gravitational Collapse and Cosmology". Proceedings of the Royal Society A. 314 (1519): 529–548. Bibcode:1970RSPSA.314..529H. doi:10.1098/rspa.1970.0021.
- ^ Aries Press. "Aries Systems and PubRef Announce Partnership Allowing Authors Direct Submission to Thousands of Scholarly Journals". Aries Systems Corporation. Retrieved 21 February 2020.
- ^ California Digital Library. "EZID Client List". California Digital Library. Retrieved 10 September 2015.[dead link]