- Crossref API: https://github.com/CrossRef/rest-api-doc/blob/master/rest_api.md
- Crossref metadata search API (http://search.labs.crossref.org/)
- CrossRef DOI Content Negotiation
- Text and Data Mining TDM
Stable version from CRAN
install.packages("rcrossref")Or development version from GitHub
install.packages("devtools")
devtools::install_github("ropensci/rcrossref")Load rcrossref
library('rcrossref')Use CrossRef's DOI Content Negotiation service, where you can citations back in various formats, including apa
cr_cn(dois = "10.1126/science.169.3946.635", format = "text", style = "apa")
#> [1] "Frank, H. S. (1970). The Structure of Ordinary Water: New data and interpretations are yielding new insights into this fascinating substance. Science, 169(3946), 635–641. doi:10.1126/science.169.3946.635"bibtex
cat(cr_cn(dois = "10.1126/science.169.3946.635", format = "bibtex"))
#> @article{Frank_1970,
#> doi = {10.1126/science.169.3946.635},
#> url = {https://doi.org/10.1126%2Fscience.169.3946.635},
#> year = 1970,
#> month = {aug},
#> publisher = {American Association for the Advancement of Science ({AAAS})},
#> volume = {169},
#> number = {3946},
#> pages = {635--641},
#> author = {H. S. Frank},
#> title = {The Structure of Ordinary Water: New data and interpretations are yielding new insights into this fascinating substance},
#> journal = {Science}
#> }bibentry
cr_cn(dois = "10.6084/m9.figshare.97218", format = "bibentry")Citation count, using OpenURL
cr_citation_count(doi = "10.1371/journal.pone.0042793")
#> [1] 17The following functions all use the CrossRef API.
cr_funders(query = "NSF")
#> $meta
#> total_results search_terms start_index items_per_page
#> 1 9 NSF 0 20
#>
#> $data
#> # A tibble: 9 x 6
#> id location
#> <chr> <chr>
#> 1 100006445 United States
#> 2 100003187 United States
#> 3 501100008982 Sri Lanka
#> 4 100008367 Denmark
#> 5 501100004190 Norway
#> 6 100000179 United States
#> 7 501100000930 Australia
#> 8 100000001 United States
#> 9 501100001809 China
#> # ... with 4 more variables: name <chr>, alt.names <chr>, uri <chr>,
#> # tokens <chr>
#>
#> $facets
#> NULLcr_agency(dois = '10.13039/100000001')
#> $DOI
#> [1] "10.13039/100000001"
#>
#> $agency
#> $agency$id
#> [1] "crossref"
#>
#> $agency$label
#> [1] "Crossref"cr_works(filter = c(has_orcid = TRUE, from_pub_date = '2004-04-04'), limit = 1)
#> $meta
#> total_results search_terms start_index items_per_page
#> 1 1078355 NA 0 1
#>
#> $data
#> # A tibble: 1 x 26
#> container.title created deposited
#> <chr> <chr> <chr>
#> 1 Journal of Materials Chemistry B 2015-01-13 2017-11-12
#> # ... with 23 more variables: DOI <chr>, indexed <chr>, ISSN <chr>,
#> # issue <chr>, issued <chr>, member <chr>, page <chr>, prefix <chr>,
#> # publisher <chr>, reference.count <chr>, score <chr>, source <chr>,
#> # subject <chr>, title <chr>, type <chr>, update.policy <chr>,
#> # URL <chr>, volume <chr>, abstract <chr>, assertion <list>,
#> # author <list>, funder <list>, link <list>
#>
#> $facets
#> NULLcr_journals(issn = c('1803-2427','2326-4225'))
#> $data
#> # A tibble: 2 x 3
#> ISSN publisher
#> <chr> <chr>
#> 1 1805-4196,1803-2427 De Gruyter Open Sp. z o.o.
#> 2 2326-4225 American Scientific Publishers
#> # ... with 1 more variables: title <chr>
#>
#> $facets
#> NULLcr_licenses(query = 'elsevier')
#> $meta
#> total_results search_terms start_index items_per_page
#> 1 22 elsevier 0 20
#>
#> $data
#> # A tibble: 22 x 2
#> URL work.count
#> <chr> <int>
#> 1 http://aspb.org/publications/aspb-journals/open-articles 1
#> 2 http://creativecommons.org/licenses/by-nc-nd/3.0/ 12
#> 3 http://creativecommons.org/licenses/by-nc-nd/4.0/ 7
#> 4 http://creativecommons.org/licenses/by-nc/4.0/ 1
#> 5 http://creativecommons.org/licenses/by/3.0/ 1
#> 6 http://creativecommons.org/licenses/by/4.0 1
#> 7 http://creativecommons.org/licenses/by/4.0/ 1
#> 8 http://doi.wiley.com/10.1002/tdm_license_1 157
#> 9 http://doi.wiley.com/10.1002/tdm_license_1.1 2166
#> 10 http://journals.iucr.org/services/copyrightpolicy.html 10
#> # ... with 12 more rowscr_prefixes(prefixes = c('10.1016','10.1371','10.1023','10.4176','10.1093'))
#> $meta
#> NULL
#>
#> $data
#> member name
#> 1 http://id.crossref.org/member/78 Elsevier BV
#> 2 http://id.crossref.org/member/340 Public Library of Science (PLoS)
#> 3 http://id.crossref.org/member/297 Springer Nature
#> 4 http://id.crossref.org/member/1989 Co-Action Publishing
#> 5 http://id.crossref.org/member/286 Oxford University Press (OUP)
#> prefix
#> 1 http://id.crossref.org/prefix/10.1016
#> 2 http://id.crossref.org/prefix/10.1371
#> 3 http://id.crossref.org/prefix/10.1023
#> 4 http://id.crossref.org/prefix/10.4176
#> 5 http://id.crossref.org/prefix/10.1093
#>
#> $facets
#> list()cr_members(query = 'ecology', limit = 5)
#> $meta
#> total_results search_terms start_index items_per_page
#> 1 18 ecology 0 5
#>
#> $data
#> # A tibble: 5 x 48
#> id primary_name
#> <int> <chr>
#> 1 336 Japanese Society of Microbial Ecology
#> 2 1950 Journal of Vector Ecology
#> 3 2080 The Japan Society of Tropical Ecology
#> 4 2467 Ideas in Ecology and Evolution
#> 5 3732 Japan Association for Landscape Ecology
#> # ... with 46 more variables: location <chr>,
#> # last_status_check_time <date>, total.dois <chr>, current.dois <chr>,
#> # backfile.dois <chr>, prefixes <chr>,
#> # coverge.affiliations.current <chr>, coverge.funders.backfile <chr>,
#> # coverge.licenses.backfile <chr>, coverge.funders.current <chr>,
#> # coverge.affiliations.backfile <chr>,
#> # coverge.resource.links.backfile <chr>, coverge.orcids.backfile <chr>,
#> # coverge.update.policies.current <chr>, coverge.orcids.current <chr>,
#> # coverge.references.backfile <chr>,
#> # coverge.award.numbers.backfile <chr>,
#> # coverge.update.policies.backfile <chr>,
#> # coverge.licenses.current <chr>, coverge.award.numbers.current <chr>,
#> # coverge.abstracts.backfile <chr>,
#> # coverge.resource.links.current <chr>, coverge.abstracts.current <chr>,
#> # coverge.references.current <chr>,
#> # flags.deposits.abstracts.current <chr>,
#> # flags.deposits.orcids.current <chr>, flags.deposits <chr>,
#> # flags.deposits.affiliations.backfile <chr>,
#> # flags.deposits.update.policies.backfile <chr>,
#> # flags.deposits.award.numbers.current <chr>,
#> # flags.deposits.resource.links.current <chr>,
#> # flags.deposits.articles <chr>,
#> # flags.deposits.affiliations.current <chr>,
#> # flags.deposits.funders.current <chr>,
#> # flags.deposits.references.backfile <chr>,
#> # flags.deposits.abstracts.backfile <chr>,
#> # flags.deposits.licenses.backfile <chr>,
#> # flags.deposits.award.numbers.backfile <chr>,
#> # flags.deposits.references.current <chr>,
#> # flags.deposits.resource.links.backfile <chr>,
#> # flags.deposits.orcids.backfile <chr>,
#> # flags.deposits.funders.backfile <chr>,
#> # flags.deposits.update.policies.current <chr>,
#> # flags.deposits.licenses.current <chr>, names <chr>, tokens <chr>
#>
#> $facets
#> NULLcr_r() uses the function cr_works() internally.
cr_r()
#> [1] "10.2210/pdb4ut7/pdb"
#> [2] "10.1108/vjikms-01-2016-0002"
#> [3] "10.7251/ghte1410087p"
#> [4] "10.1111/j.1467-8292.1953.tb01215.x"
#> [5] "10.1093/jnci/djh130"
#> [6] "10.1061/40743(142)19"
#> [7] "10.1016/j.apradiso.2013.11.126"
#> [8] "10.1007/s00066-014-0720-3"
#> [9] "10.1021/jp9818176"
#> [10] "10.1016/j.enbuild.2003.10.013"You can pass in the number of DOIs you want back (default is 10)
cr_r(2)
#> [1] "10.1016/s0950-5601(54)80052-9" "10.1016/s0020-7292(12)61466-0"Publishers can optionally provide links in the metadata they provide to Crossref for full text of the work, but that data is often missing. Find out more about it at http://tdmsupport.crossref.org/.
Get some DOIs for articles that provide full text, and that have CC-BY 3.0 licenses (i.e., more likely to actually be open)
out <-
cr_works(filter = list(has_full_text = TRUE,
license_url = "http://creativecommons.org/licenses/by/3.0/"))
(dois <- out$data$DOI)
#> [1] "10.1016/s0370-2693(01)01481-2" "10.1016/s0370-2693(01)01478-2"
#> [3] "10.1016/s0370-2693(01)01480-0" "10.1016/s0370-2693(01)01482-4"
#> [5] "10.1016/s0370-2693(01)01488-5" "10.1016/s0370-2693(01)01490-3"
#> [7] "10.1016/s0370-2693(01)01492-7" "10.1016/s0370-2693(01)01465-4"
#> [9] "10.1016/s0370-2693(01)01442-3" "10.1016/s0370-2693(01)01418-6"
#> [11] "10.1016/s0370-2693(01)01395-8" "10.1016/s0370-2693(01)01426-5"
#> [13] "10.1016/s0370-2693(01)01415-0" "10.1016/s0370-2693(01)01425-3"
#> [15] "10.1016/s0370-2693(01)01410-1" "10.1016/s0370-2693(01)01419-8"
#> [17] "10.1016/s0370-2693(01)01420-4" "10.1016/s0370-2693(01)01427-7"
#> [19] "10.1016/s0370-2693(01)01282-5" "10.1016/s0370-2693(01)01424-1"From the output of cr_works we can get full text links if we know where to look:
do.call("rbind", out$data$link)
#> # A tibble: 40 x 4
#> URL
#> <chr>
#> 1 http://api.elsevier.com/content/article/PII:S0370269301014812?httpAccept=te
#> 2 http://api.elsevier.com/content/article/PII:S0370269301014812?httpAccept=te
#> 3 http://api.elsevier.com/content/article/PII:S0370269301014782?httpAccept=te
#> 4 http://api.elsevier.com/content/article/PII:S0370269301014782?httpAccept=te
#> 5 http://api.elsevier.com/content/article/PII:S0370269301014800?httpAccept=te
#> 6 http://api.elsevier.com/content/article/PII:S0370269301014800?httpAccept=te
#> 7 http://api.elsevier.com/content/article/PII:S0370269301014824?httpAccept=te
#> 8 http://api.elsevier.com/content/article/PII:S0370269301014824?httpAccept=te
#> 9 http://api.elsevier.com/content/article/PII:S0370269301014885?httpAccept=te
#> 10 http://api.elsevier.com/content/article/PII:S0370269301014885?httpAccept=te
#> # ... with 30 more rows, and 3 more variables: content.type <chr>,
#> # content.version <chr>, intended.application <chr>From there, you can grab your full text, but because most links require
authentication, enter another package: crminer.
You'll need package crminer for the rest
Onc we have DOIs, get URLs to full text content
if (!requireNamespace("crminer")) {
install.packages("crminer")
}library(crminer)
(links <- crm_links(dois[1]))
#> $xml
#> <url> https://api.elsevier.com/content/article/PII:S0370269301014812?httpAccept=text/xml
#>
#> $plain
#> <url> https://api.elsevier.com/content/article/PII:S0370269301014812?httpAccept=text/plainThen use those URLs to get full text
crm_pdf(links)
#> <document>/Users/sacmac/Library/Caches/crminer/174726.pdf
#> Pages: 7
#> No. characters: 36232
#> Created: 2014-03-26See also fulltext for getting scholarly text for text mining.
- Please report any issues or bugs.
- License: MIT
- Get citation information for
rcrossrefin R doingcitation(package = 'rcrossref') - Please note that this project is released with a Contributor Code of Conduct. By participating in this project you agree to abide by its terms.
This package is part of a richer suite called fulltext, along with several other packages, that provides the ability to search for and retrieve full text of open access scholarly articles.
