diff --git a/README.Rmd b/README.Rmd index 27832a9..850d26b 100644 --- a/README.Rmd +++ b/README.Rmd @@ -122,6 +122,22 @@ works_from_dois |> knitr::kable() ``` +**Goal**: Download all works given their PMIDs. + +Use `pmid` as a filter: + +```{r} +works_from_pmids <- oa_fetch( + entity = "works", + pmid = c("14907713", 32572199), + verbose = TRUE +) +works_from_pmids |> + show_works() |> + knitr::kable() +``` + + **Goal**: Download all works published by a set of authors (known ORCIDs). Use `author.orcid` as a filter (either canonical form with or without will work): @@ -132,7 +148,6 @@ works_from_orcids <- oa_fetch( author.orcid = c("0000-0001-6187-6610", "0000-0002-8517-9411"), verbose = TRUE ) - works_from_orcids |> show_works() |> knitr::kable() @@ -150,7 +165,6 @@ works_search <- oa_fetch( options = list(sort = "cited_by_count:desc"), verbose = TRUE ) - works_search |> show_works() |> knitr::kable() @@ -167,7 +181,6 @@ authors_from_orcids <- oa_fetch( entity = "authors", orcid = c("0000-0001-6187-6610", "0000-0002-8517-9411") ) - authors_from_orcids |> show_authors() |> knitr::kable() @@ -198,7 +211,6 @@ my_arguments <- list( last_known_institutions.id = "I71267560", works_count = ">499" ) - do.call(oa_fetch, c(my_arguments, list(count_only = TRUE))) if (do.call(oa_fetch, c(my_arguments, list(count_only = TRUE)))[1]>0){ @@ -222,7 +234,6 @@ concept_df <- oa_fetch( ancestors.id = "https://openalex.org/C86803240", # Biology works_count = ">1000000" ) - concept_df |> select(display_name, counts_by_year) |> tidyr::unnest(counts_by_year) |> @@ -255,7 +266,6 @@ italy_insts <- oa_fetch( type = "education", verbose = TRUE ) - italy_insts |> slice_max(cited_by_count, n = 8) |> mutate(display_name = forcats::fct_reorder(display_name, cited_by_count)) |> @@ -276,7 +286,6 @@ And what do they publish on? ```{r concept-cloud, fig.height=5, fig.width=7} # The package wordcloud needs to be installed to run this chunk # library(wordcloud) - concept_cloud <- italy_insts |> select(inst_id = id, topics) |> tidyr::unnest(topics) |> @@ -284,7 +293,6 @@ concept_cloud <- italy_insts |> select(display_name, count) |> group_by(display_name) |> summarise(score = sqrt(sum(count))) - pal <- c("black", scales::brewer_pal(palette = "Set1")(5)) set.seed(1) wordcloud::wordcloud( @@ -302,7 +310,6 @@ We first download all records regarding journals that have published more than 3 ```{r big-journals, message=FALSE, fig.height=8, fig.width=8} # The package ggtext needs to be installed to run this chunk # library(ggtext) - jours_all <- oa_fetch( entity = "sources", works_count = ">200000", @@ -379,7 +386,6 @@ snowball_docs <- oa_snowball( identifier = c("W1964141474", "W1963991285"), verbose = TRUE ) - ggraph(graph = as_tbl_graph(snowball_docs), layout = "stress") + geom_edge_link(aes(alpha = after_stat(index)), show.legend = FALSE) + geom_node_point(aes(fill = oa_input, size = cited_by_count), shape = 21, color = "white") + @@ -398,9 +404,12 @@ ggraph(graph = as_tbl_graph(snowball_docs), layout = "stress") + ## 🌾 N-grams +**Update 2024-09-15**: The n-gram API endpoint is [not currently in service](https://docs.openalex.org/api-entities/works/get-n-grams#api-endpoint). +The following code chunk is not evaluated. + OpenAlex offers (limited) support for [fulltext N-grams](https://docs.openalex.org/api-entities/works/get-n-grams#fulltext-coverage) of Work entities (these have IDs starting with `"W"`). Given a vector of work IDs, `oa_ngrams` returns a dataframe of N-gram data (in the `ngrams` list-column) for each work. -```{r ngrams, fig.height=3} +```{r ngrams, eval=FALSE, fig.height=3} ngrams_data <- oa_ngrams( works_identifier = c("W1964141474", "W1963991285"), verbose = TRUE diff --git a/README.md b/README.md index ddd2a24..86c6893 100644 --- a/README.md +++ b/README.md @@ -145,9 +145,34 @@ works_from_dois |> | id | display_name | first_author | last_author | so | url | is_oa | top_concepts | |:------------|:--------------------------------------------------------------------------|:------------------|:-------------------|:------------------------|:--------------------------------------------|:------|:--------------------------------------| -| W2755950973 | bibliometrix : An R-tool for comprehensive science mapping analysis | Massimo Aria | Corrado Cuccurullo | Journal of informetrics | | FALSE | Workflow, Bibliometrics, Software | +| W2755950973 | bibliometrix : An R-tool for comprehensive science mapping analysis | Massimo Aria | Corrado Cuccurullo | Journal of Informetrics | | FALSE | Workflow, Bibliometrics, Software | | W2038196424 | Coverage and adoption of altmetrics sources in the bibliometric community | Stefanie Haustein | Jens Terliesner | Scientometrics | | FALSE | Altmetrics, Bookmarking, Social media | +**Goal**: Download all works given their PMIDs. + +Use `pmid` as a filter: + +``` r +works_from_pmids <- oa_fetch( + entity = "works", + pmid = c("14907713", 32572199), + verbose = TRUE +) +#> Requesting url: https://api.openalex.org/works?filter=pmid%3A14907713%7C32572199 +#> Getting 1 page of results with a total of 2 records... +``` + +``` r +works_from_pmids |> + show_works() |> + knitr::kable() +``` + +| id | display_name | first_author | last_author | so | url | is_oa | top_concepts | +|:------------|:-----------------------------------------------------------------------------------|:----------------|:----------------|:--------------------------------|:------------------------------------------------|:------|:-----------------------------| +| W1775749144 | PROTEIN MEASUREMENT WITH THE FOLIN PHENOL REAGENT | Oliver H. Lowry | ROSE J. RANDALL | Journal of Biological Chemistry | | TRUE | Reagent, Phenol | +| W3036882247 | Integrating spatial gene expression and breast tumour morphology via deep learning | Bryan He | James Zou | Nature Biomedical Engineering | | FALSE | Histopathology, Gene, Cancer | + **Goal**: Download all works published by a set of authors (known ORCIDs). @@ -161,7 +186,7 @@ works_from_orcids <- oa_fetch( verbose = TRUE ) #> Requesting url: https://api.openalex.org/works?filter=author.orcid%3A0000-0001-6187-6610%7C0000-0002-8517-9411 -#> Getting 2 pages of results with a total of 260 records... +#> Getting 2 pages of results with a total of 259 records... #> Warning in oa_request(oa_query(filter = filter_i, multiple_id = multiple_id, : #> The following work(s) have truncated lists of authors: W4230863633. #> Query each work separately by its identifier to get full list of authors. @@ -171,20 +196,19 @@ works_from_orcids <- oa_fetch( ``` ``` r - works_from_orcids |> show_works() |> knitr::kable() ``` -| id | display_name | first_author | last_author | so | url | is_oa | top_concepts | -|:------------|:------------------------------------------------------------------------------------------------------------------------------------------|:-------------------|:---------------------|:---------------------------|:---------------------------------------------|:------|:----------------------------------------------------------------| -| W2755950973 | bibliometrix : An R-tool for comprehensive science mapping analysis | Massimo Aria | Corrado Cuccurullo | Journal of informetrics | | FALSE | Workflow, Bibliometrics, Software | -| W2741809807 | The state of OA: a large-scale analysis of the prevalence and impact of Open Access articles | Heather Piwowar | Stefanie Haustein | PeerJ | | TRUE | Citation, License, Bibliometrics | -| W2122130843 | Scientometrics 2.0: New metrics of scholarly impact on the social Web | Jason Priem | Bradely H. Hemminger | First Monday | | FALSE | Bookmarking, Altmetrics, Social media | -| W3005144120 | Mapping the Evolution of Social Research and Data Science on 30 Years of Social Indicators Research | Massimo Aria | Maria Spano | Social indicators research | | FALSE | Human geography, Data collection, Position (finance) | -| W2038196424 | Coverage and adoption of altmetrics sources in the bibliometric community | Stefanie Haustein | Jens Terliesner | Scientometrics | | FALSE | Altmetrics, Bookmarking, Social media | -| W2408216567 | Foundations and trends in performance management. A twenty-five years bibliometric analysis in business and public administration domains | Corrado Cuccurullo | Fabrizia Sarto | Scientometrics | | FALSE | Domain (mathematical analysis), Content analysis, Public domain | +| id | display_name | first_author | last_author | so | url | is_oa | top_concepts | +|:------------|:----------------------------------------------------------------------------------------------------|:----------------|:---------------------|:---------------------------|:-----------------------------------------------------------------------------------|:------|:-----------------------------------------------------| +| W2755950973 | bibliometrix : An R-tool for comprehensive science mapping analysis | Massimo Aria | Corrado Cuccurullo | Journal of Informetrics | | FALSE | Workflow, Bibliometrics, Software | +| W2741809807 | The state of OA: a large-scale analysis of the prevalence and impact of Open Access articles | Heather Piwowar | Stefanie Haustein | PeerJ | | TRUE | Citation, License, Bibliometrics | +| W2122130843 | Scientometrics 2.0: New metrics of scholarly impact on the social Web | Jason Priem | Bradely H. Hemminger | First Monday | | FALSE | Bookmarking, Altmetrics, Social media | +| W1553564559 | Altmetrics in the wild: Using social media to explore scholarly impact | Jason Priem | Bradley M. Hemminger | arXiv (Cornell University) | | TRUE | Altmetrics, Social media, Citation | +| W3005144120 | Mapping the Evolution of Social Research and Data Science on 30 Years of Social Indicators Research | Massimo Aria | Maria Spano | Social Indicators Research | | FALSE | Human geography, Data collection, Position (finance) | +| W3130540911 | altmetrics: a manifesto | Jason Priem | Cameron Neylon | NA | | FALSE | Altmetrics, Manifesto | **Goal**: Download all works that have been cited more than 50 times, published between 2020 and 2021, and include the strings “bibliometric @@ -202,24 +226,23 @@ works_search <- oa_fetch( verbose = TRUE ) #> Requesting url: https://api.openalex.org/works?filter=title.search%3Abibliometric%20analysis%7Cscience%20mapping%2Ccited_by_count%3A%3E50%2Cfrom_publication_date%3A2020-01-01%2Cto_publication_date%3A2021-12-31&sort=cited_by_count%3Adesc -#> Getting 2 pages of results with a total of 258 records... +#> Getting 2 pages of results with a total of 372 records... ``` ``` r - works_search |> show_works() |> knitr::kable() ``` -| id | display_name | first_author | last_author | so | url | is_oa | top_concepts | -|:------------|:------------------------------------------------------------------------------------------------------------------------------|:--------------------|:-------------------|:------------------------------------------|:------------------------------------------------|:------|:--------------------------------------------------------------| -| W3160856016 | How to conduct a bibliometric analysis: An overview and guidelines | Naveen Donthu | Weng Marc Lim | Journal of business research | | TRUE | Bibliometrics, Field (mathematics), Resource (disambiguation) | -| W3038273726 | Investigating the emerging COVID-19 research trends in the field of business and management: A bibliometric analysis approach | Surabhi Verma | Anders Gustafsson | Journal of business research | | TRUE | Bibliometrics, Field (mathematics), Empirical research | -| W3001491100 | Software tools for conducting bibliometric analysis in science: An up-to-date review | José A. Moral-Muñoz | Manuel J. Cobo | ˜El œProfesional de la información | | TRUE | Bibliometrics, Visualization, Set (abstract data type) | -| W2990450011 | Forty-five years of Journal of Business Research: A bibliometric analysis | Naveen Donthu | Debidutta Pattnaik | Journal of business research | | FALSE | Publishing, Bibliometrics, Empirical research | -| W3044902155 | Financial literacy: A systematic review and bibliometric analysis | Kirti Goyal | Satish Kumar | International journal of consumer studies | | FALSE | Financial literacy, Content analysis, Citation | -| W2990688366 | A bibliometric analysis of board diversity: Current status, development, and future research directions | H. Kent Baker | Arunima Haldar | Journal of business research | | FALSE | Diversity (politics), Ethnic group, Bibliometrics | +| id | display_name | first_author | last_author | so | url | is_oa | top_concepts | +|:------------|:-------------------------------------------------------------------------------------------------------------------------------------------|:--------------------|:-------------------|:-----------------------------------------------|:------------------------------------------------|:------|:--------------------------------------------------------------| +| W3160856016 | How to conduct a bibliometric analysis: An overview and guidelines | Naveen Donthu | Weng Marc Lim | Journal of Business Research | | TRUE | Bibliometrics, Field (mathematics), Resource (disambiguation) | +| W3001491100 | Software tools for conducting bibliometric analysis in science: An up-to-date review | José A. Moral-Muñoz | Manuel J. Cobo | El Profesional de la Informacion | | TRUE | Bibliometrics, Visualization, Set (abstract data type) | +| W3038273726 | Investigating the emerging COVID-19 research trends in the field of business and management: A bibliometric analysis approach | Surabhi Verma | Anders Gustafsson | Journal of Business Research | | TRUE | Bibliometrics, Field (mathematics), Empirical research | +| W3044902155 | Financial literacy: A systematic review and bibliometric analysis | Kirti Goyal | Satish Kumar | International Journal of Consumer Studies | | FALSE | Financial literacy, Content analysis, Citation | +| W3042215340 | A bibliometric analysis using VOSviewer of publications on COVID-19 | Yuetian Yu | Erzhen Chen | Annals of Translational Medicine | | TRUE | Citation, Bibliometrics, China | +| W3198357836 | Artificial intelligence and machine learning in finance: Identifying foundations, themes, and research clusters from bibliometric analysis | John W. Goodell | Debidutta Pattnaik | Journal of Behavioral and Experimental Finance | | FALSE | Scholarship, Valuation (finance), Corporate finance | ### 🧑 Authors @@ -235,7 +258,6 @@ authors_from_orcids <- oa_fetch( entity = "authors", orcid = c("0000-0001-6187-6610", "0000-0002-8517-9411") ) - authors_from_orcids |> show_authors() |> knitr::kable() @@ -243,8 +265,8 @@ authors_from_orcids |> | id | display_name | orcid | works_count | cited_by_count | affiliation_display_name | top_concepts | |:------------|:-------------|:--------------------|------------:|---------------:|:---------------------------------|:----------------------------------------------------------------------------| -| A5069892096 | Massimo Aria | 0000-0002-8517-9411 | 192 | 8282 | University of Naples Federico II | Physiology, Pathology and Forensic Medicine, Periodontics | -| A5023888391 | Jason Priem | 0000-0001-6187-6610 | 67 | 2541 | OurResearch | Statistics, Probability and Uncertainty, Information Systems, Communication | +| A5069892096 | Massimo Aria | 0000-0002-8517-9411 | 197 | 10881 | University of Naples Federico II | Physiology, Pathology and Forensic Medicine, Periodontics | +| A5023888391 | Jason Priem | 0000-0001-6187-6610 | 62 | 3673 | OurResearch | Statistics, Probability and Uncertainty, Information Systems, Communication | **Goal**: Acquire information on the authors of this package. @@ -263,8 +285,8 @@ authors_from_names |> | id | display_name | orcid | works_count | cited_by_count | affiliation_display_name | top_concepts | |:------------|:-------------|:--------------------|------------:|---------------:|:---------------------------------|:----------------------------------------------------------------------------| -| A5069892096 | Massimo Aria | 0000-0002-8517-9411 | 192 | 8282 | University of Naples Federico II | Physiology, Pathology and Forensic Medicine, Periodontics | -| A5023888391 | Jason Priem | 0000-0001-6187-6610 | 67 | 2541 | OurResearch | Statistics, Probability and Uncertainty, Information Systems, Communication | +| A5069892096 | Massimo Aria | 0000-0002-8517-9411 | 197 | 10881 | University of Naples Federico II | Physiology, Pathology and Forensic Medicine, Periodontics | +| A5023888391 | Jason Priem | 0000-0001-6187-6610 | 62 | 3673 | OurResearch | Statistics, Probability and Uncertainty, Information Systems, Communication | **Goal**: Download all authors’ records of scholars who work at the [University of Naples Federico @@ -281,10 +303,9 @@ my_arguments <- list( last_known_institutions.id = "I71267560", works_count = ">499" ) - do.call(oa_fetch, c(my_arguments, list(count_only = TRUE))) #> count db_response_time_ms page per_page -#> [1,] 36 177 1 1 +#> [1,] 44 81 1 1 ``` ``` r @@ -294,16 +315,28 @@ do.call(oa_fetch, my_arguments) |> show_authors() |> knitr::kable() } +#> Warning: Unknown or uninitialised column: `name`. +#> Warning: Unknown or uninitialised column: `display_name`. +#> Warning: Unknown or uninitialised column: `name`. +#> Warning: Unknown or uninitialised column: `display_name`. +#> Warning: Unknown or uninitialised column: `name`. +#> Warning: Unknown or uninitialised column: `display_name`. +#> Warning: Unknown or uninitialised column: `name`. +#> Warning: Unknown or uninitialised column: `display_name`. +#> Warning: Unknown or uninitialised column: `name`. +#> Warning: Unknown or uninitialised column: `display_name`. +#> Warning: Unknown or uninitialised column: `name`. +#> Warning: Unknown or uninitialised column: `display_name`. ``` -| id | display_name | orcid | works_count | cited_by_count | affiliation_display_name | top_concepts | -|:------------|:-------------------------|:--------------------|------------:|---------------:|:---------------------------------|:--------------------------------------------------------------------------------------------------| -| A5063152727 | L. Lista | 0000-0001-6471-5492 | 2374 | 73504 | INFN Sezione di Napoli | Nuclear and High Energy Physics, Nuclear and High Energy Physics, Nuclear and High Energy Physics | -| A5069689088 | C. Sciacca | 0000-0002-8412-4072 | 2372 | 60702 | INFN Sezione di Napoli | Nuclear and High Energy Physics, Nuclear and High Energy Physics, Nuclear and High Energy Physics | -| A5019451576 | Alberto Orso Maria Iorio | 0000-0002-3798-1135 | 1227 | 29599 | INFN Sezione di Napoli | Nuclear and High Energy Physics, Nuclear and High Energy Physics, Nuclear and High Energy Physics | -| A5078843367 | G. De Nardo | NA | 968 | 28236 | University of Naples Federico II | Nuclear and High Energy Physics, Nuclear and High Energy Physics, Nuclear and High Energy Physics | -| A5076706548 | Salvatore Capozziello | 0000-0003-4886-2024 | 930 | 34384 | University of Naples Federico II | Astronomy and Astrophysics, Nuclear and High Energy Physics, Astronomy and Astrophysics | -| A5023058736 | Francesco Fienga | 0000-0001-5978-4952 | 846 | 17271 | University of Naples Federico II | Nuclear and High Energy Physics, Nuclear and High Energy Physics, Nuclear and High Energy Physics | +| id | display_name | orcid | works_count | cited_by_count | affiliation_display_name | top_concepts | +|:------------|:---------------------|:--------------------|------------:|---------------:|:---------------------------------|:--------------------------------------------------------------------------------------------------| +| A5106552509 | C. Sciacca | 0000-0002-8412-4072 | 3803 | 140341 | INFN Sezione di Napoli | | +| A5091797706 | L. Lista | 0000-0001-6471-5492 | 3730 | 162016 | INFN Sezione di Napoli | Nuclear and High Energy Physics, Nuclear and High Energy Physics, Nuclear and High Energy Physics | +| A5003544129 | Annamaria Colao | 0000-0001-6986-266X | 1305 | 44071 | University of Naples Federico II | Endocrinology, Diabetes and Metabolism, Endocrinology, Diabetes and Metabolism, Surgery | +| A5106315809 | M. Merola | 0000-0002-7082-8108 | 1194 | 66583 | INFN Sezione di Napoli | | +| A5026402548 | Gabriella Fabbrocini | 0000-0002-0064-1874 | 992 | 16411 | University of Naples Federico II | Dermatology, Immunology, Dermatology | +| A5064690950 | R. De Rosa | 0000-0002-4004-947X | 915 | 89676 | University of Naples Federico II | Astronomy and Astrophysics, Ocean Engineering, Astronomy and Astrophysics | ## 🍒 Example analyses @@ -320,7 +353,6 @@ concept_df <- oa_fetch( ancestors.id = "https://openalex.org/C86803240", # Biology works_count = ">1000000" ) - concept_df |> select(display_name, counts_by_year) |> tidyr::unnest(counts_by_year) |> @@ -364,7 +396,6 @@ italy_insts <- oa_fetch( ``` ``` r - italy_insts |> slice_max(cited_by_count, n = 8) |> mutate(display_name = forcats::fct_reorder(display_name, cited_by_count)) |> @@ -387,7 +418,6 @@ And what do they publish on? ``` r # The package wordcloud needs to be installed to run this chunk # library(wordcloud) - concept_cloud <- italy_insts |> select(inst_id = id, topics) |> tidyr::unnest(topics) |> @@ -395,7 +425,6 @@ concept_cloud <- italy_insts |> select(display_name, count) |> group_by(display_name) |> summarise(score = sqrt(sum(count))) - pal <- c("black", scales::brewer_pal(palette = "Set1")(5)) set.seed(1) wordcloud::wordcloud( @@ -416,7 +445,6 @@ more than 300,000 works, then visualize their scored concepts: ``` r # The package ggtext needs to be installed to run this chunk # library(ggtext) - jours_all <- oa_fetch( entity = "sources", works_count = ">200000", @@ -514,14 +542,13 @@ snowball_docs <- oa_snowball( #> Getting 1 page of results with a total of 2 records... #> Collecting all documents citing the target papers... #> Requesting url: https://api.openalex.org/works?filter=cites%3AW1963991285%7CW1964141474 -#> Getting 3 pages of results with a total of 540 records... +#> Getting 3 pages of results with a total of 593 records... #> Collecting all documents cited by the target papers... #> Requesting url: https://api.openalex.org/works?filter=cited_by%3AW1963991285%7CW1964141474 -#> Getting 1 page of results with a total of 91 records... +#> Getting 1 page of results with a total of 94 records... ``` ``` r - ggraph(graph = as_tbl_graph(snowball_docs), layout = "stress") + geom_edge_link(aes(alpha = after_stat(index)), show.legend = FALSE) + geom_node_point(aes(fill = oa_input, size = cited_by_count), shape = 21, color = "white") + @@ -542,6 +569,10 @@ ggraph(graph = as_tbl_graph(snowball_docs), layout = "stress") + ## 🌾 N-grams +**Update 2024-09-15**: The n-gram API endpoint is [not currently in +service](https://docs.openalex.org/api-entities/works/get-n-grams#api-endpoint). +The following code chunk is not evaluated. + OpenAlex offers (limited) support for [fulltext N-grams](https://docs.openalex.org/api-entities/works/get-n-grams#fulltext-coverage) of Work entities (these have IDs starting with `"W"`). Given a vector of @@ -555,38 +586,8 @@ ngrams_data <- oa_ngrams( ) ngrams_data -#> # A tibble: 2 × 4 -#> id doi count ngrams -#> -#> 1 https://openalex.org/W1964141474 https://doi.org/10.1016/j.conb.… 2733 -#> 2 https://openalex.org/W1963991285 https://doi.org/10.1126/science… 2338 -``` - -``` r lapply(ngrams_data$ngrams, head, 3) -#> [[1]] -#> ngram ngram_count ngram_tokens -#> 1 brain basis and core cause 2 5 -#> 2 cause be not yet fully 2 5 -#> 3 include structural and functional magnetic 2 5 -#> term_frequency -#> 1 0.0006637902 -#> 2 0.0006637902 -#> 3 0.0006637902 -#> -#> [[2]] -#> ngram ngram_count ngram_tokens -#> 1 intact but less accessible phonetic 1 5 -#> 2 accessible phonetic representation in Adults 1 5 -#> 3 representation in Adults with Dyslexia 1 5 -#> term_frequency -#> 1 0.0003756574 -#> 2 0.0003756574 -#> 3 0.0003756574 -``` - -``` r ngrams_data |> tidyr::unnest(ngrams) |> @@ -604,8 +605,6 @@ ngrams_data |> ) ``` - - `oa_ngrams` can sometimes be slow because the N-grams data can get pretty big, but given that the N-grams are `"cached via CDN"`\](), diff --git a/man/figures/README-big-journals-1.png b/man/figures/README-big-journals-1.png index 2e2b503..8e6f554 100644 Binary files a/man/figures/README-big-journals-1.png and b/man/figures/README-big-journals-1.png differ diff --git a/man/figures/README-biological-concepts-1.png b/man/figures/README-biological-concepts-1.png index cddf0b9..82299c4 100644 Binary files a/man/figures/README-biological-concepts-1.png and b/man/figures/README-biological-concepts-1.png differ diff --git a/man/figures/README-concept-cloud-1.png b/man/figures/README-concept-cloud-1.png index f81c5f0..0eedce3 100644 Binary files a/man/figures/README-concept-cloud-1.png and b/man/figures/README-concept-cloud-1.png differ diff --git a/man/figures/README-italy-insts-1.png b/man/figures/README-italy-insts-1.png index 7bd0dab..a1df646 100644 Binary files a/man/figures/README-italy-insts-1.png and b/man/figures/README-italy-insts-1.png differ diff --git a/man/figures/README-snowballing-1.png b/man/figures/README-snowballing-1.png index fd1f2a8..ef7ca1f 100644 Binary files a/man/figures/README-snowballing-1.png and b/man/figures/README-snowballing-1.png differ