vignettes/vignette_4_traditional.md
In kamclean/impactr:
title: "Impact from Traditional Metrics"
date: "2020-10-04"
always_allow_html: yes
output:
md_document:
variant: gfm
vignette: >
%\VignetteIndexEntry{Vignette Title}
%\VignetteEngine{knitr::rmarkdown}
%\VignetteEncoding{UTF-8}
Impact from Traditional Metrics
Citations are a common metric for determining the impact of research on the wider academic field. Both extract_pmid() and extract_doi() will provide data on citations (based on PubMed/Crossref repositories) and journal impact factor (based on Scimago Scientific Journal Rankings).
impact_cite()
The function impact_cite() can also produce several metrics that can be used for the purposes of assessment of the more traditional research impact of publications. This includes:
-
Journal-Level: Impact Factor (IF) and Eigenfactor.
-
Paper-Level: Citations from online repositories (in addition to PubMed):
-
Google Scholar (cite_gs): Accessed via the gcite package. (requires the Google Scholar ID for an individual to be supplied to gscholar - does not support multiple IDs).
-
CrossRef (cite_cr): Accessed via the rcrossref package. (requires crossref=TRUE).
-
Dimentions (cite_dim): Accessed via the Dimentions API (requires dimentions=TRUE).
-
Scopus (cite_scopus): Accessed via the rscopus package (requires scopus=TRUE and valid scopus API set via rscopus::set_api_key()).
-
Open Citations (cite_oc): Accessed via the Open Citations API (requires oc=TRUE). Note: this is felt to be too sparcely populated at present (Feb 2020) to be of practical use.
data_cite <- impactr::impact_cite(data = data, var_id = "pmid",
crossref=TRUE, dimentions=TRUE, scopus=FALSE, oc = TRUE,
gscholar = "Ol5uNSwAAAAJ&hl", metric=TRUE)
doi
title
journal edit
journal if
cite dim
cite gs
10.1136/bmjopen-2014-005164
Multicentre observational cohort study of NSAIDs as risk factors for postoperative adverse events in gastrointestinal surgery.
BMJ open
2.271
7
9
10.1002/bjs.9614
Impact of postoperative non-steroidal anti-inflammatory drugs on adverse events after gastrointestinal surgery.
BJS
5.542
58
66
10.1136/bmjopen-2015-008811
Determining Surgical Complications in the Overweight (DISCOVER): a multicentre observational cohort study to evaluate the role of obesity as a risk factor for postoperative complications in general surgery.
BMJ open
2.562
16
25
10.1002/bjs.10203
Multicentre prospective cohort study of body mass index and postoperative complications following gastrointestinal surgery.
BJS
5.899
43
53
10.1007/s00268-016-3727-3
Safety of Nonsteroidal Anti-inflammatory Drugs in Major Gastrointestinal Surgery: A Prospective, Multicenter Cohort Study.
World journal of surgery
2.673
14
12
10.1111/codi.14292
Body mass index and complications following major gastrointestinal surgery: a prospective, international cohort study and meta-analysis.
Colorectal Disease
2.997
13
17
10.1016/j.bja.2018.07.029
Critical care usage after major gastrointestinal and liver surgery: a prospective, multicentre observational study.
British journal of anaesthesia
6.199
0
3
10.1136/bmjopen-2015-009812
Outcomes After Kidney injury in Surgery (OAKS): protocol for a multicentre, observational cohort study of acute kidney injury following major gastrointestinal and liver surgery.
BMJ open
2.369
18
18
10.1002/bjs5.86
Prognostic model to predict postoperative acute kidney injury in patients undergoing major gastrointestinal surgery based on a national prospective observational cohort study.
BJS open
NA
6
7
10.1111/anae.14349
Association between peri-operative angiotensin-converting enzyme inhibitors and angiotensin-2 receptor blockers and acute kidney injury in major elective non-cardiac surgery: a multicentre, prospective cohort study.
Anaesthesia
5.879
14
12
10.1111/anae.14552
Peri-operative acute kidney injury - a reply.
Anaesthesia
5.739
1
1
10.1111/codi.13976
Ileus Management International (IMAGINE): protocol for a multicentre, observational study of ileus after colorectal surgery.
Colorectal Disease
2.778
14
17
10.1002/bjs.11326
Safety and efficacy of non-steroidal anti-inflammatory drugs to reduce ileus after colorectal surgery.
BJS
5.676
8
9
10.1371/journal.pone.0118899
Social media and internet driven study recruitment: evaluating a new model for promoting collaborator engagement and participation.
PloS one
3.057
70
122
10.1186/s12909-015-0326-1
Promoting research and audit at medical school: evaluating the educational impact of participation in a student-led national collaborative study.
BMC medical education
1.312
46
59
10.1136/postgradmedj-2017-135035
Medical research and audit skills training for undergraduates: an international analysis and student-focused needs assessment.
Postgraduate medical journal
2.078
5
8
10.1016/j.ijsu.2017.01.114
Students' participation in collaborative research should be recognised.
International journal of surgery (London, England)
NA
11
13
10.1016/j.ijsu.2017.12.019
Recognising contributions to work in research collaboratives: Guidelines for standardising reporting of authorship in collaborative research.
International journal of surgery (London, England)
NA
10
5
10.1016/S0140-6736(14)61983-8
Bridging medical education and clinical practice.
Lancet (London, England)
45.217
3
4
10.1001/jamasurg.2015.0806
Selective vs Nonselective Nonsteroidal Anti-inflammatory Drugs and Anastomotic Leakage After Colorectal Surgery.
JAMA surgery
5.661
0
NA
10.1136/bmj.h2772
Training and trials--building a future.
BMJ (Clinical research ed.)
19.697
2
2
10.1016/j.amjsurg.2015.04.005
Caution when interpreting anti-inflammatory drug effects in rat models of gastrointestinal anastomosis.
American journal of surgery
2.403
0
0
10.1016/S0140-6736(16)31151-5
UK surgical trainees will continue to support European research collaboration.
Lancet (London, England)
47.831
2
NA
10.1136/bmj.l795
Collaborative student research efforts provide a solution to research wastage.
BMJ (Clinical research ed.)
30.223
4
6
Impact Metrics
Citations
Citations (e.g. cite_max) can be used to either provide summary statistics or visualisations.
Note: Google Scholar is typically being more sensitive but less specific in estimating citation count than Crossref / PubMed repositories.
Only Google Scholar and Open Citations allow exporation of the citations over time. This will be included in the output of impact_cite() if either of those sources are selected.
This can be used to plot the longitudinal impact of the paper through citations over time.
Journals
As journal-level information is also extracted using impact_cite() (e.g. impact factor / Eigenfactor) this can also allow some assessment of impact of the articles in relation to the journal benchmark.
For example, the plot below demonstrates the ratio of Paper Citations : Journal Impact Factor - any point above the horizontal line (ratio of 1:1) indicates the paper has gathered more citations than typical for that journal.
Metrics
Citation metrics are author-level measures that attempts to assess both the productivity and citation impact of the publications. These include:
-
Total citations: Total number of citations that they have received in other publications.
-
H-Index: Based on the set of the scientist's most cited papers and the number of citations that they have received in other publications.
-
M-Quotient: A method to facilitate comparisons between academics with different lengths of academic careers. This divides the h-index by the number of years the academic has been active (measured as the number of years since the first published paper)
-
G-Index: It aims to improve on the h-index by giving more weight to highly-cited articles. The H-Index can "undervalue" highly cited papers as it ignores the number of citations to each individual article beyond what is needed to achieve a certain h-index.
impact_cite() will produce common citation metrics automatically based on the papers included in the dataframe supplied. Alternatively this can be calculated directly using cite_metric().
data_cite$metric; impactr::cite_metric(data_cite$df$cite_max, data_cite$df$year)
## # A tibble: 1 x 4
## total_cite hindex gindex mquotient
## <dbl> <int> <int> <dbl>
## 1 591 13 24 6.5
## # A tibble: 1 x 4
## total_cite hindex gindex mquotient
## <dbl> <int> <int> <dbl>
## 1 591 13 24 6.5
Troubleshooting ($validation)
The Google Scholar ID is used to derive publications, and so all publications by an author (or authorship group) must be uploaded under one Google Scholar account.
As google scholar does not contain DOI or PMID, papers must be matched by title, and can only be matched if there is a google scholar record for each paper in the supplied dataframe. impact_cite() provides several features to proactively identify issues via $validation output.
The outcome will record either matched, or the following:
-
noscholar: If there is no corresponding google scholar record for the publication, then these will be listed here.
-
unmatch: If the google scholar records were unable to be matched to the existing dataset (by title), then these will be listed here.
kamclean/impactr documentation built on Jan. 11, 2023, 2:51 p.m.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
title: "Impact from Traditional Metrics" date: "2020-10-04" always_allow_html: yes output: md_document: variant: gfm vignette: > %\VignetteIndexEntry{Vignette Title} %\VignetteEngine{knitr::rmarkdown} %\VignetteEncoding{UTF-8}
Impact from Traditional Metrics
Citations are a common metric for determining the impact of research on the wider academic field. Both extract_pmid() and extract_doi() will provide data on citations (based on PubMed/Crossref repositories) and journal impact factor (based on Scimago Scientific Journal Rankings).
impact_cite()
The function impact_cite() can also produce several metrics that can be used for the purposes of assessment of the more traditional research impact of publications. This includes:
-
Journal-Level: Impact Factor (IF) and Eigenfactor.
-
Paper-Level: Citations from online repositories (in addition to PubMed):
-
Google Scholar (
cite_gs): Accessed via the gcite package. (requires the Google Scholar ID for an individual to be supplied togscholar- does not support multiple IDs). -
CrossRef (
cite_cr): Accessed via the rcrossref package. (requires crossref=TRUE). -
Dimentions (
cite_dim): Accessed via the Dimentions API (requires dimentions=TRUE). -
Scopus (
cite_scopus): Accessed via the rscopus package (requires scopus=TRUE and valid scopus API set viarscopus::set_api_key()). -
Open Citations (
cite_oc): Accessed via the Open Citations API (requires oc=TRUE). Note: this is felt to be too sparcely populated at present (Feb 2020) to be of practical use.
data_cite <- impactr::impact_cite(data = data, var_id = "pmid",
crossref=TRUE, dimentions=TRUE, scopus=FALSE, oc = TRUE,
gscholar = "Ol5uNSwAAAAJ&hl", metric=TRUE)
doi
title
journal edit
journal if
cite dim
cite gs
10.1136/bmjopen-2014-005164
Multicentre observational cohort study of NSAIDs as risk factors for postoperative adverse events in gastrointestinal surgery.
BMJ open
2.271
7
9
10.1002/bjs.9614
Impact of postoperative non-steroidal anti-inflammatory drugs on adverse events after gastrointestinal surgery.
BJS
5.542
58
66
10.1136/bmjopen-2015-008811
Determining Surgical Complications in the Overweight (DISCOVER): a multicentre observational cohort study to evaluate the role of obesity as a risk factor for postoperative complications in general surgery.
BMJ open
2.562
16
25
10.1002/bjs.10203
Multicentre prospective cohort study of body mass index and postoperative complications following gastrointestinal surgery.
BJS
5.899
43
53
10.1007/s00268-016-3727-3
Safety of Nonsteroidal Anti-inflammatory Drugs in Major Gastrointestinal Surgery: A Prospective, Multicenter Cohort Study.
World journal of surgery
2.673
14
12
10.1111/codi.14292
Body mass index and complications following major gastrointestinal surgery: a prospective, international cohort study and meta-analysis.
Colorectal Disease
2.997
13
17
10.1016/j.bja.2018.07.029
Critical care usage after major gastrointestinal and liver surgery: a prospective, multicentre observational study.
British journal of anaesthesia
6.199
0
3
10.1136/bmjopen-2015-009812
Outcomes After Kidney injury in Surgery (OAKS): protocol for a multicentre, observational cohort study of acute kidney injury following major gastrointestinal and liver surgery.
BMJ open
2.369
18
18
10.1002/bjs5.86
Prognostic model to predict postoperative acute kidney injury in patients undergoing major gastrointestinal surgery based on a national prospective observational cohort study.
BJS open
NA
6
7
10.1111/anae.14349
Association between peri-operative angiotensin-converting enzyme inhibitors and angiotensin-2 receptor blockers and acute kidney injury in major elective non-cardiac surgery: a multicentre, prospective cohort study.
Anaesthesia
5.879
14
12
10.1111/anae.14552
Peri-operative acute kidney injury - a reply.
Anaesthesia
5.739
1
1
10.1111/codi.13976
Ileus Management International (IMAGINE): protocol for a multicentre, observational study of ileus after colorectal surgery.
Colorectal Disease
2.778
14
17
10.1002/bjs.11326
Safety and efficacy of non-steroidal anti-inflammatory drugs to reduce ileus after colorectal surgery.
BJS
5.676
8
9
10.1371/journal.pone.0118899
Social media and internet driven study recruitment: evaluating a new model for promoting collaborator engagement and participation.
PloS one
3.057
70
122
10.1186/s12909-015-0326-1
Promoting research and audit at medical school: evaluating the educational impact of participation in a student-led national collaborative study.
BMC medical education
1.312
46
59
10.1136/postgradmedj-2017-135035
Medical research and audit skills training for undergraduates: an international analysis and student-focused needs assessment.
Postgraduate medical journal
2.078
5
8
10.1016/j.ijsu.2017.01.114
Students' participation in collaborative research should be recognised.
International journal of surgery (London, England)
NA
11
13
10.1016/j.ijsu.2017.12.019
Recognising contributions to work in research collaboratives: Guidelines for standardising reporting of authorship in collaborative research.
International journal of surgery (London, England)
NA
10
5
10.1016/S0140-6736(14)61983-8
Bridging medical education and clinical practice.
Lancet (London, England)
45.217
3
4
10.1001/jamasurg.2015.0806
Selective vs Nonselective Nonsteroidal Anti-inflammatory Drugs and Anastomotic Leakage After Colorectal Surgery.
JAMA surgery
5.661
0
NA
10.1136/bmj.h2772
Training and trials--building a future.
BMJ (Clinical research ed.)
19.697
2
2
10.1016/j.amjsurg.2015.04.005
Caution when interpreting anti-inflammatory drug effects in rat models of gastrointestinal anastomosis.
American journal of surgery
2.403
0
0
10.1016/S0140-6736(16)31151-5
UK surgical trainees will continue to support European research collaboration.
Lancet (London, England)
47.831
2
NA
10.1136/bmj.l795
Collaborative student research efforts provide a solution to research wastage.
BMJ (Clinical research ed.)
30.223
4
6
Impact Metrics
Citations
Citations (e.g. cite_max) can be used to either provide summary statistics or visualisations.
Note: Google Scholar is typically being more sensitive but less specific in estimating citation count than Crossref / PubMed repositories.
Only Google Scholar and Open Citations allow exporation of the citations over time. This will be included in the output of impact_cite() if either of those sources are selected.
This can be used to plot the longitudinal impact of the paper through citations over time.
Journals
As journal-level information is also extracted using impact_cite() (e.g. impact factor / Eigenfactor) this can also allow some assessment of impact of the articles in relation to the journal benchmark.
For example, the plot below demonstrates the ratio of Paper Citations : Journal Impact Factor - any point above the horizontal line (ratio of 1:1) indicates the paper has gathered more citations than typical for that journal.
Metrics
Citation metrics are author-level measures that attempts to assess both the productivity and citation impact of the publications. These include:
-
Total citations: Total number of citations that they have received in other publications.
-
H-Index: Based on the set of the scientist's most cited papers and the number of citations that they have received in other publications.
-
M-Quotient: A method to facilitate comparisons between academics with different lengths of academic careers. This divides the h-index by the number of years the academic has been active (measured as the number of years since the first published paper)
-
G-Index: It aims to improve on the h-index by giving more weight to highly-cited articles. The H-Index can "undervalue" highly cited papers as it ignores the number of citations to each individual article beyond what is needed to achieve a certain h-index.
impact_cite() will produce common citation metrics automatically based on the papers included in the dataframe supplied. Alternatively this can be calculated directly using cite_metric().
data_cite$metric; impactr::cite_metric(data_cite$df$cite_max, data_cite$df$year)
## # A tibble: 1 x 4
## total_cite hindex gindex mquotient
## <dbl> <int> <int> <dbl>
## 1 591 13 24 6.5
## # A tibble: 1 x 4
## total_cite hindex gindex mquotient
## <dbl> <int> <int> <dbl>
## 1 591 13 24 6.5
Troubleshooting ($validation)
The Google Scholar ID is used to derive publications, and so all publications by an author (or authorship group) must be uploaded under one Google Scholar account.
As google scholar does not contain DOI or PMID, papers must be matched by title, and can only be matched if there is a google scholar record for each paper in the supplied dataframe. impact_cite() provides several features to proactively identify issues via $validation output.
The outcome will record either matched, or the following:
-
noscholar: If there is no corresponding google scholar record for the publication, then these will be listed here. -
unmatch: If the google scholar records were unable to be matched to the existing dataset (by title), then these will be listed here.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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