A repository for exploring and identifying the best journals in which to publish a paper.
This package is only available on GitHub.
install.packages("devtools")
library(devtools)
install_github("vallenderlab/JournalAnalysis")- Choose an Impact Factor dataset (
scimagoorincities). - Create EUPMC style string queries in the analysis.R script. Multiple queries will produce article information that will be added together.
- Adjust the limit in order to get all of the data you want or to test out your query.
- Adjust the filtering parameters, and change the names of the files that will be produced.
Below is a simple example. You can also view our example vignette.
> library(JournalAnalysis)
> pub_data <- get_publication_data(journal_source = "scimago", queries = c(query1, query2), limit = 1000, min_citations = 20)
14588 records found, returning 1000
(-) [=================================================] 100%
4005 records found, returning 1000
(/) [=================================================] 100%
Removed records published before 2008.
Removed records published after 2018.
Removed records with less than 20 citations.
Removed records with NA values for pmid, doi, and authors.
30 records passed the filter.
There were 30 warnings (use warnings() to see them)
>
>
>
> pub_data$journals
# A tibble: 22 x 18
Rank Title Type SJR SJR.Best.Quarti~ H.index Total.Docs...20~ Total.Docs...3ye~ Total.Refs.
<int> <fct> <fct> <dbl> <fct> <int> <int> <int> <int>
1 6 Cell journ~ 26.9 Q1 655 693 1885 29440
2 20 Nature journ~ 18.1 Q1 1011 2661 8198 43004
3 30 Nature Immuno~ journ~ 14.5 Q1 323 224 707 9749
4 38 Science journ~ 13.5 Q1 978 2079 6670 36734
5 138 Trends in Neu~ journ~ 7.27 Q1 254 84 264 6905
6 147 American Jour~ journ~ 7.14 Q1 266 245 616 9620
7 154 Molecular Psy~ journ~ 6.92 Q1 180 328 652 13379
8 189 Biological Ps~ journ~ 6.04 Q1 273 382 982 14362
9 256 Nature Review~ journ~ 5.03 Q1 104 225 867 8184
10 381 European Jour~ journ~ 4.01 Q1 87 126 322 5231
# ... with 12 more rows, and 9 more variables: Total.Cites..3years. <int>, Citable.Docs...3years. <int>,
# Cites...Doc...2years. <dbl>, Ref....Doc. <dbl>, Country <fct>, Categories <fct>, ISSN <chr>,
# ISSN.1 <fct>, ISSN.2 <fct>
>
>
>
> pub_data$articles
# A tibble: 30 x 29
id source pmid doi title authorString journalTitle pubYear journalIssn pubType isOpenAccess inEPMC
<chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr>
1 25815~ MED 2581~ 10.1~ Prom~ Fontana L, ~ Cell 2015 "00928674;~ "resea~ N Y
2 27981~ MED 2798~ 10.1~ The ~ Rea K, Dina~ Neurobiol S~ 2016 23522895 "revie~ Y Y
3 26912~ MED 2691~ 10.1~ Grow~ Luczynski P~ Int J Neuro~ 2016 "14611457;~ "resea~ Y Y
4 27641~ MED 2764~ 10.1~ Gut ~ Dinan TG, C~ J Physiol 2017 "00223751;~ "revie~ N N
5 28242~ MED 2824~ 10.1~ Targ~ Burokas A, ~ Biol Psychi~ 2017 "00063223;~ journa~ N N
6 27090~ MED 2709~ 10.1~ From~ Rogers GB, ~ Mol Psychia~ 2016 "13594184;~ "revie~ Y Y
7 28186~ MED 2818~ 10.1~ The ~ Simon DW, M~ Nat Rev Neu~ 2017 "17594758;~ "resea~ N Y
8 28686~ MED 2868~ 10.1~ 10 Y~ Visscher PM~ Am J Hum Ge~ 2017 "00029297;~ "revie~ N Y
9 27793~ MED 2779~ 10.1~ Psyc~ Sarkar A, L~ Trends Neur~ 2016 "01662236;~ "resea~ Y Y
10 28475~ MED 2847~ 10.1~ Meta~ Buck MD, So~ Cell 2017 "00928674;~ "resea~ N Y
# ... with 20 more rows, and 17 more variables: inPMC <chr>, hasPDF <chr>, hasBook <chr>,
# citedByCount <int>, hasReferences <chr>, hasTextMinedTerms <chr>, hasDbCrossReferences <chr>,
# hasLabsLinks <chr>, hasTMAccessionNumbers <chr>, firstPublicationDate <chr>, pageInfo <chr>,
# pmcid <chr>, issue <chr>, journalVolume <chr>, hasSuppl <chr>, ISSN.1 <fct>, ISSN.2 <fct>
>
>
>
> pub_data$combined
# A tibble: 30 x 48
id source pmid doi title authorString journalTitle pubYear journalIssn pubType isOpenAccess inEPMC
<chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr>
1 25815~ MED 2581~ 10.1~ Prom~ Fontana L, ~ Cell 2015 "00928674;~ "resea~ N Y
2 27981~ MED 2798~ 10.1~ The ~ Rea K, Dina~ Neurobiol S~ 2016 23522895 "revie~ Y Y
3 26912~ MED 2691~ 10.1~ Grow~ Luczynski P~ Int J Neuro~ 2016 "14611457;~ "resea~ Y Y
4 27641~ MED 2764~ 10.1~ Gut ~ Dinan TG, C~ J Physiol 2017 "00223751;~ "revie~ N N
5 28242~ MED 2824~ 10.1~ Targ~ Burokas A, ~ Biol Psychi~ 2017 "00063223;~ journa~ N N
6 27090~ MED 2709~ 10.1~ From~ Rogers GB, ~ Mol Psychia~ 2016 "13594184;~ "revie~ Y Y
7 28186~ MED 2818~ 10.1~ The ~ Simon DW, M~ Nat Rev Neu~ 2017 "17594758;~ "resea~ N Y
8 28686~ MED 2868~ 10.1~ 10 Y~ Visscher PM~ Am J Hum Ge~ 2017 "00029297;~ "revie~ N Y
9 27793~ MED 2779~ 10.1~ Psyc~ Sarkar A, L~ Trends Neur~ 2016 "01662236;~ "resea~ Y Y
10 28475~ MED 2847~ 10.1~ Meta~ Buck MD, So~ Cell 2017 "00928674;~ "resea~ N Y
# ... with 20 more rows, and 36 more variables: inPMC <chr>, hasPDF <chr>, hasBook <chr>,
# citedByCount <int>, hasReferences <chr>, hasTextMinedTerms <chr>, hasDbCrossReferences <chr>,
# hasLabsLinks <chr>, hasTMAccessionNumbers <chr>, firstPublicationDate <chr>, pageInfo <chr>,
# pmcid <chr>, issue <chr>, journalVolume <chr>, hasSuppl <chr>, ISSN.1 <chr>, ISSN.2.x <fct>, Rank <int>,
# Title <fct>, Type <fct>, SJR <dbl>, SJR.Best.Quartile <fct>, H.index <int>, Total.Docs...2016. <int>,
# Total.Docs...3years. <int>, Total.Refs. <int>, Total.Cites..3years. <int>, Citable.Docs...3years. <int>,
# Cites...Doc...2years. <dbl>, Ref....Doc. <dbl>, Country <fct>, Categories <fct>, ISSN <chr>,
# ISSN.2.y <fct>, ISSN.2 <fct>, ISSN.1.y <fct>