diff --git a/inst/CITATION b/inst/CITATION deleted file mode 100644 index 7370770..0000000 --- a/inst/CITATION +++ /dev/null @@ -1,22 +0,0 @@ -citHeader("To cite medrxivr in publications use:") - -citEntry( - entry = "Article", - title = - "medrxivr: Accessing and searching medRxiv and bioRxiv preprint data in R", - author = "Luke A. McGuinness and Lena Schmidt", - journal = "Journal of Open Source Software", - year = "2020", - volume = "5", - number = "54", - pages = "2651", - doi = "10.21105/joss.02651", - url = "https://doi.org/10.21105/joss.02651", - - textVersion = paste( - "Luke A. McGuinness & Lena Schmidt (2020).", - "medrxivr: Accessing and searching medRxiv and bioRxiv preprint data in R.", - "Journal of Open Source Software, 5(54), 2651.", - "https://doi.org/10.21105/joss.02651" - ) -) diff --git a/inst/paper.bib b/inst/paper.bib deleted file mode 100644 index 1e39f0b..0000000 --- a/inst/paper.bib +++ /dev/null @@ -1,28 +0,0 @@ - -@article{Brierley, - title = {The Role of Research Preprints in the Academic Response to the {{COVID}}-19 Epidemic}, - author = {Brierley, Liam}, - year = {2020}, - publisher = {{Authorea, Inc.}}, - doi = {10.22541/au.158516578.89167184}, - journal = {Authorea} -} - -@article{rawlinson2019, - title = {New Preprint Server for Medical Research}, - author = {Rawlinson, Claire and Bloom, Theodora}, - year = {2019}, - volume = {365}, - publisher = {{British Medical Journal Publishing Group}}, - issn = {0959-8138, 1756-1833}, - doi = {10.1136/bmj.l2301}, - abstract = {{$<$}p{$>$}Announcing the launch of medRxiv for faster access to better evidence{$<$}/p{$>$}}, - chapter = {Editorial}, - copyright = {Published by the BMJ Publishing Group Limited. For permission to use (where not already granted under a licence) please go to http://group.bmj.com/group/rights-licensing/permissions}, - file = {C\:\\Users\\lm16564\\Zotero\\storage\\C643I5RI\\Rawlinson and Bloom - 2019 - New preprint server for medical research.pdf;C\:\\Users\\lm16564\\Zotero\\storage\\FDGFMIUQ\\bmj.html}, - journal = {BMJ}, - language = {en}, - pmid = {31167753} -} - - diff --git a/inst/paper.md b/inst/paper.md deleted file mode 100644 index 2d0aa49..0000000 --- a/inst/paper.md +++ /dev/null @@ -1,36 +0,0 @@ ---- -title: 'medrxivr: Accessing and searching medRxiv and bioRxiv preprint data in R' -tags: - - R - - systematic review - - evidence synthesis - - bibliographic database -authors: - - name: Luke A McGuinness - orcid: 0000-0003-0872-7098 - affiliation: "1, 2" - - name: Lena Schmidt - orcid: 0000-0003-0709-8226 - affiliation: 1 -affiliations: - - name: Department of Population Health Science, University of Bristol - index: 1 - - name: MRC Intergrative Epidemiology Unit, University of Bristol - index: 2 -date: 11 August 2020 -bibliography: paper.bib ---- - -# Summary - -An increasingly important source of health-related bibliographic content are preprints: preliminary versions of research articles that have yet to undergo peer review. The two preprint repositories most relevant to health-related sciences are [medRxiv](https://www.medrxiv.org) and [bioRxiv](https://www.biorxiv.org), both of which are operated by the Cold Spring Harbor Laboratory, a not-for-profit research and educational institution [@rawlinson2019]. - -The goal of the `medrxivr` R package is two-fold. In the first instance, it provides programmatic access to the Cold Spring Harbour Laboratory (CSHL) API, allowing users to download medRxiv and bioRxiv preprint metadata (e.g., title, abstract, author list.) This functionality will be of interest to anyone who wishes to import medRxiv and/or bioRxiv preprint metadata into R, for example to explore the distribution of preprints by subject area or by publication year. Examples of this type of usage have already been reported [e.g., by @Brierley]. - -In the second instance, the package provides functions that allow users to search the downloaded preprint metadata for relevant preprints using complex search strings, including functionality such as search term truncation, Boolean operators (AND, OR, NOT), and term proximity. Helper functions are provided that allow users to export the results of their search to a .bib file for import into a reference manager (e.g., Zotero) and to download the full-text PDFs of preprints matching their search. This aspect of the package will be more relevant to systematic reviewers, health librarians and others performing literature searches, allowing them to perform and document transparent and reproducible searches in these important evidence sources. - -# Acknowledgements - -We acknowledge funding from NIHR (LAM through NIHR Doctoral Research Fellowship (DRF-2018-11-ST2-048), and LS through NIHR Systematic Reviews Fellowship (RM-SR-2017-09-028)). LAM is a member of the MRC Integrative Epidemiology Unit at the University of Bristol. The views expressed in this article are those of the authors and do not necessarily represent those of the NHS, the NIHR, MRC, or the Department of Health and Social Care. - -# References