From 299d1be60a3b73399ac8d584d00f305515a9482e Mon Sep 17 00:00:00 2001 From: ZekeMarshall Date: Mon, 8 Jul 2024 16:58:12 +0100 Subject: [PATCH] More JOSS paper reference fixes --- JOSS/paper.Rmd | 4 +- JOSS/paper.bib | 232 ++++++++++++++++++++---------------------------- JOSS/paper.html | 161 ++++++++++++++++----------------- JOSS/paper.md | 4 +- 4 files changed, 181 insertions(+), 220 deletions(-) diff --git a/JOSS/paper.Rmd b/JOSS/paper.Rmd index 60541ae..a27f96b 100644 --- a/JOSS/paper.Rmd +++ b/JOSS/paper.Rmd @@ -43,7 +43,7 @@ classification units using computational methods is a well established and recognised practice [@maciejewski2020]. The results of this assignment process are used in various ways, including assisting in the phase 2 habitat survey -(or NVC survey) [@rodwell2006national] process; +(or NVC survey) process [@rodwell2006national]; establishing an ecological baseline and identifying important ecological features such as protected habitats [@cieem2022]; and in ecological restoration by providing a proxy for historical reference @@ -147,7 +147,7 @@ and 4) Newborough Warren [@wallace2018]. Version 1.0 of `RMAVIS` was built under R 4.4.0 [@rcoreteam] and depends on the -`bookdown` [@xie2024b], +`bookdown` [@xie2024a], `bsicons` [@sievert2023a], `bslib` [@sievert2024a], `dplyr` [@wickham2019], diff --git a/JOSS/paper.bib b/JOSS/paper.bib index 8e73aae..4678417 100644 --- a/JOSS/paper.bib +++ b/JOSS/paper.bib @@ -1,32 +1,27 @@ @misc{allaire2024, title = {{rmarkdown}: {{Dynamic Documents}} for {{R}}}, - author = {Allaire, J. J. and Xie, Yihui and Dervieux, Christophe and McPherson, Jonathan and Luraschi, Javier and Ushey, Kevin and Atkins, Aron and Wickham, Hadley and Cheng, Joe and Chang, Winston and Iannone, Richard and Dunning, Andrew and Yasumoto, Atsushi and Schloerke, Barret and Sievert, Carson and Ryan, Devon and Aust, Frederik and Allen, Jeff and Seo, JooYoung and Barrett, Malcolm and Hyndman, Rob and Lesur, Romain and Storey, Roy and Arslan, Ruben and Oller, Sergio and {Posit PBC} and Otto, Mark and Thornton, Jacob and Farkas, Alexander and Jehl, Scott and Sagalaev, Ivan and Franko, Greg and MacFarlane, John and Raggett, Dave and Gandy, Dave and Sperry, Ben and Drifty and Lister, Aidan and Jonsson, Benct Philip and Krewinkel, Albert}, + author = {JJ Allaire and Yihui Xie and Christophe Dervieux and Jonathan McPherson and Javier Luraschi and Kevin Ushey and Aron Atkins and Hadley Wickham and Joe Cheng and Winston Chang and Richard Iannone}, year = {2024}, - month = may, - urldate = {2024-07-08}, + note = {R package version 2.26}, abstract = {Convert R Markdown documents into a variety of formats.}, copyright = {GPL-3}, doi = {10.32614/CRAN.package.rmarkdown} } @misc{attali2021, - title = {{shinyjs}: {{Easily Improve}} the {{User Experience}} of {{Your Shiny Apps}} in {{Seconds}}}, - author = {Attali, Dean}, - year = {2021}, - month = dec, - urldate = {2024-07-08}, - copyright = {MIT + file LICENSE}, - doi = {10.32614/CRAN.package.shinyjs} + title = {{shinyjs}: {{Easily Improve}} the {{User Experience}} of {{Your Shiny Apps}} in {{Seconds}}}, + author = {Dean Attali}, + year = {2021}, + note = {R package version 2.1.0}, + doi = {10.32614/CRAN.package.shinyjs} } @misc{bache2022a, - title = {{magrittr}: {{A Forward-Pipe Operator}} for {{R}}}, - author = {Bache, Stefan Milton and Wickham, Hadley and Henry, Lionel and {Posit PBC}}, - year = {2022}, - month = mar, - urldate = {2024-07-08}, - copyright = {MIT + file LICENSE}, - doi = {10.32614/CRAN.package.magrittr} + title = {{magrittr}: {{A Forward-Pipe Operator}} for {{R}}}, + author = {Stefan Milton Bache and Hadley Wickham}, + year = {2022}, + note = {R package version 2.0.3}, + doi = {10.32614/CRAN.package.magrittr} } @misc{bsbi2017ellenbergF, @@ -104,29 +99,25 @@ @misc{butcher2020 } @misc{chang2024, - title = {{Shiny}: {{Web Application Framework}} for {{R}}}, - author = {Chang, Winston and Cheng, Joe and Allaire, J. J. and Sievert, Carson and Schloerke, Barret and Xie, Yihui and Allen, Jeff and McPherson, Jonathan and Dipert, Alan and Borges, Barbara and {Posit PBC} and Otto, Mark and Thornton, Jacob and Khan, Prem Nawaz and Tsaran, Victor and Lembree, Dennis and Chakravarthula, Srinivasu and O'Connor, Cathy and Petre, Stefan and Rowls, Andrew and Reavis, Brian and Bejaoui, Salmen and Ineshin, Denis and Samhuri, Sami and Fraser, John and Gruber, John and Sagalaev, Ivan and R. Core Team}, - year = {2024}, - month = apr, - urldate = {2024-07-08}, - copyright = {GPL-3 {\textbar} file LICENSE}, - keywords = {WebTechnologies}, - doi = {10.32614/CRAN.package.shiny} + title = {{Shiny}: {{Web Application Framework}} for {{R}}}, + author = {Winston Chang and Joe Cheng and JJ Allaire and Carson Sievert and Barret Schloerke and Yihui Xie and Jeff Allen and Jonathan McPherson and Alan Dipert and Barbara Borges}, + year = {2024}, + note = {R package version 1.8.1.1}, + doi = {10.32614/CRAN.package.shiny} } @misc{cheng2024, - title = {{htmltools}: {{Tools}} for {{HTML}}}, - author = {Cheng, Joe and Sievert, Carson and Schloerke, Barret and Chang, Winston and Xie, Yihui and Allen, Jeff and {Posit PBC}}, - year = {2024}, - month = apr, - copyright = {GPL-2 {\textbar} GPL-3 [expanded from: GPL ({$\geq$} 2)]}, - doi = {10.32614/CRAN.package.htmltools} + title = {{htmltools}: {{Tools}} for {{HTML}}}, + author = {Joe Cheng and Carson Sievert and Barret Schloerke and Winston Chang and Yihui Xie and Jeff Allen}, + year = {2024}, + note = {R package version 0.5.8.1}, + doi = {10.32614/CRAN.package.htmltools} } @misc{cieem2022, author = {CIEEM}, howpublished = {PDF}, - title = {Guidelines For Ecological Impact Assessment In The UK And Ireland. Terrestrial, Freshwater, Coastal and Marine. September 2018. Version 1.2 - Updates April 2022}, + title = {Guidelines For Ecological Impact Assessment In The UK And Ireland. Terrestrial, Freshwater, Coastal and Marine. September 2018. Version 1.2 - Updates {{April}} 2022}, year = {2022}, url = {https://cieem.net/wp-content/uploads/2018/08/ECIA-Guidelines-2018-Terrestrial-Freshwater-Coastal-and-Marine-V1.2-April-22-Compressed.pdf} } @@ -162,10 +153,9 @@ @misc{hill2007 author = {Hill, M. O. and Preston, Christopher D. and Bosanquet, Sam D. S. and Roy D. B.}, title = {BRYOATT - Attributes of British and Irish Mosses, Liverworts and Hornworts - Spreadsheet}, year = {2007}, - publisher = {Centre for Ecology and Hydrology}, + publisher = {{Centre for Ecology and Hydrology}}, address = {Huntingdon}, - language = {eng}, - url = {https://www.brc.ac.uk/biblio/bryoatt-attributes-british-and-irish-mosses-liverworts-and-hornworts-spreadsheet} + language = {eng} } @manual{jncc2008, @@ -189,13 +179,11 @@ @article{kass2023 } @misc{lin2023, - title = {{reactable}: {{Interactive Data Tables}} for {{R}}}, - author = {Lin, Greg and Linsley, Tanner and Russell, Kent and Vaidyanathan, Ramnath and Cheng, Joe and Allaire, {\relax JJ} and Xie, Yihui and Russell, Kenton and Aboukhadijeh, Feross and Shtylman, Roman and Halliday, James and {Posit PBC}}, - year = {2023}, - month = mar, - urldate = {2024-07-08}, - copyright = {MIT + file LICENSE}, - doi = {10.32614/CRAN.package.reactable} + title = {{reactable}: {{Interactive Data Tables}} for {{R}}}, + author = {Greg Lin}, + year = {2023}, + note = {R package version 0.4.4}, + doi = {10.32614/CRAN.package.reactable} } @article{maciejewski2020, @@ -219,8 +207,7 @@ @manual{malloch1998 } @misc{marrs2019, - type = {Other}, - title = {{{TABLEFIT}} v. 3.0 \& v.4, Programs for the Identification of Vegetation Types According to the {{British National Vegetation Classification Includes}} Software}, + title = {{{TABLEFIT}} v3.0 \& v4.0, Programs for the Identification of Vegetation Types According to the {{British National Vegetation Classification}}}, author = {Marrs, R. H.}, year = {2019}, month = aug, @@ -230,14 +217,11 @@ @misc{marrs2019 } @misc{meyer2024a, - title = {{shinybusy}: {{Busy Indicators}} and {{Notifications}} for '{{Shiny}}' {{Applications}}}, - author = {Meyer, Fanny and Perrier, Victor and Silex Technologies}, - year = {2024}, - month = mar, - urldate = {2024-07-08}, - abstract = {Add indicators (spinner, progress bar, gif) in your 'shiny' applications to show the user that the server is busy. And other tools to let your users know something is happening (send notifications, reports, ...).}, - copyright = {GPL-3}, - doi = {10.32614/CRAN.package.shinybusy} + title = {{shinybusy}: {{Busy Indicators}} and {{Notifications}} for '{{Shiny}}' {{Applications}}}, + author = {Fanny Meyer and Victor Perrier}, + year = {2024}, + note = {R package version 0.3.3}, + doi = {10.32614/CRAN.package.shinybusy} } @article{mucina2016a, @@ -294,45 +278,35 @@ @misc{nbn2024Tracheophyta } @misc{oksanen2024a, - title = {{vegan}: {{Community Ecology Package}}}, - author = {Oksanen, Jari and Simpson, Gavin L. and Blanchet, F. Guillaume and Kindt, Roeland and Legendre, Pierre and Minchin, Peter R. and O'Hara, R. B. and Solymos, Peter and Stevens, M. Henry H. and Szoecs, Eduard and Wagner, Helene and Barbour, Matt and Bedward, Michael and Bolker, Ben and Borcard, Daniel and Carvalho, Gustavo and Chirico, Michael and Caceres, Miquel De and Durand, Sebastien and Evangelista, Heloisa Beatriz Antoniazi and FitzJohn, Rich and Friendly, Michael and Furneaux, Brendan and Hannigan, Geoffrey and Hill, Mark O. and Lahti, Leo and McGlinn, Dan and Ouellette, Marie-Helene and Cunha, Eduardo Ribeiro and Smith, Tyler and Stier, Adrian and Braak, Cajo J. F. Ter and Weedon, James}, - year = {2024}, - month = may, - urldate = {2024-07-08}, - copyright = {GPL-2}, - keywords = {Environmetrics,Phylogenetics,Psychometrics,Spatial}, - doi = {10.32614/CRAN.package.vegan} + title = {{vegan}: {{Community Ecology Package}}}, + author = {Jari Oksanen and Gavin L. Simpson and F. Guillaume Blanchet and Roeland Kindt and Pierre Legendre and Peter R. Minchin and R.B. O'Hara and Peter Solymos and M. Henry H. Stevens and Eduard Szoecs and Helene Wagner and Matt Barbour and Michael Bedward and Ben Bolker and Daniel Borcard and Gustavo Carvalho and Michael Chirico and Miquel {De Caceres} and Sebastien Durand and Heloisa Beatriz Antoniazi Evangelista and Rich FitzJohn and Michael Friendly and Brendan Furneaux and Geoffrey Hannigan and Mark O. Hill and Leo Lahti and Dan McGlinn and Marie-Helene Ouellette and Eduardo {Ribeiro Cunha} and Tyler Smith and Adrian Stier and Cajo J.F. {Ter Braak} and James Weedon}, + year = {2022}, + note = {R package version 2.6-4}, + doi = {10.32614/CRAN.package.vegan} } @misc{ooms2024a, - title = {{writexl}: {{Export Data Frames}} to {{Excel}} 'xlsx' {{Format}}}, - author = {Ooms, Jeroen and McNamara, John}, - year = {2024}, - month = feb, - urldate = {2024-07-08}, - copyright = {BSD\_2\_clause + file LICENSE}, - doi = {10.32614/CRAN.package.writexl} + title = {{writexl}: {{Export Data Frames}} to {{Excel}} 'xlsx' {{Format}}}, + author = {Jeroen Ooms}, + year = {2024}, + note = {R package version 1.5}, + doi = {10.32614/CRAN.package.writexl} } @misc{owen2021a, - title = {{rhandsontable}: {{Interface}} to the '{{Handsontable}}.Js' {{Library}}}, - author = {Owen, Jonathan and Allen, Jeff and Xie, Yihui and Martoglio, Enzo and Ger, Inberg and Marcin, Warpechowski and Gregor, Aisch and Adam, Draper and Tim, Wood and Iskren, Chernev and David, Bushell and Kent, Russell and Jon, Rohan and James, Greene and Dillon, Hammill}, - year = {2021}, - month = may, - urldate = {2024-07-08}, - copyright = {MIT + file LICENSE}, - doi = {10.32614/CRAN.package.rhandsontable} + title = {{rhandsontable}: {{Interface}} to the '{{Handsontable}}.Js' {{Library}}}, + author = {Jonathan Owen}, + year = {2021}, + note = {R package version 0.3.8}, + doi = {10.32614/CRAN.package.rhandsontable} } @misc{perrier2024a, - title = {{{shinyWidgets}}: {{Custom Inputs Widgets}} for {{Shiny}}}, - shorttitle = {{{shinyWidgets}}}, - author = {Perrier, Victor and Meyer, Fanny and Granjon, David and Fellows, Ian and Davis, Wil and Matthews, Spencer}, - year = {2024}, - month = apr, - urldate = {2024-07-08}, - copyright = {GPL-3}, - doi = {10.32614/CRAN.package.shinyWidgets} + title = {{{shinyWidgets}}: {{Custom Inputs Widgets}} for {{Shiny}}}, + author = {Victor Perrier and Fanny Meyer and David Granjon}, + year = {2024}, + note = {R package version 0.8.6}, + doi = {10.32614/CRAN.package.shinyWidgets} } @article{perrin2018, @@ -512,23 +486,19 @@ @book{sievert2020 } @misc{sievert2023a, - title = {{bsicons}: {{Easily Work}} with '{{Bootstrap}}' {{Icons}}}, - author = {Sievert, Carson and {Posit PBC} and Otto, Mark}, - year = {2023}, - month = nov, - urldate = {2024-07-08}, - copyright = {MIT + file LICENSE}, - doi = {10.32614/CRAN.package.bsicons} + title = {{bsicons}: {{Easily Work}} with '{{Bootstrap}}' {{Icons}}}, + author = {Carson Sievert}, + year = {2023}, + note = {R package version 0.1.2}, + doi = {10.32614/CRAN.package.bsicons} } @misc{sievert2024a, - title = {{bslib}: {{Custom}} '{{Bootstrap}}' '{{Sass}}' {{Themes}} for 'Shiny' and 'Rmarkdown'}, - author = {Sievert, Carson and Cheng, Joe and {Aden-Buie}, Garrick and {Posit PBC} and Aguilar, Javi and Park, Thomas}, - year = {2024}, - month = mar, - urldate = {2024-07-08}, - copyright = {MIT + file LICENSE}, - doi = {10.32614/CRAN.package.bslib} + title = {{bslib}: {{Custom}} '{{Bootstrap}}' '{{Sass}}' {{Themes}} for 'Shiny' and 'Rmarkdown'}, + author = {Carson Sievert and Joe Cheng and Garrick Aden-Buie}, + year = {2024}, + note = {R package version 0.7.0}, + doi = {10.32614/CRAN.package.bslib} } @article{smart2000, @@ -582,16 +552,15 @@ @article{sturbois2023 @misc{vaidyanathan2023, - title = {{htmlwidgets}: {{HTML Widgets}} for {{R}}}, - author = {Vaidyanathan, Ramnath and Xie, Yihui and Allaire, J. J. and Cheng, Joe and Sievert, Carson and Russell, Kenton and Hughes, Ellis and {Posit PBC}}, - year = {2023}, - month = dec, - copyright = {MIT + file LICENSE}, - doi = {10.32614/CRAN.package.htmlwidgets} + title = {{htmlwidgets}: {{HTML Widgets}} for {{R}}}, + author = {Ramnath Vaidyanathan and Yihui Xie and JJ Allaire and Joe Cheng and Carson Sievert and Kenton Russell}, + year = {2023}, + note = {R package version 1.6.4}, + doi = {10.32614/CRAN.package.htmlwidgets} } @unpublished{wallace2017, - title = {A review of the National Vegetation Classification for the Calthion group of plant communities in England and Wales (JP021)}, + title = {A review of the National Vegetation Classification for the Calthion group of plant communities in {{England}} and {{Wales}} (JP021)}, author = {Wallace, Hilary and Prosser, Mike}, publisher = {Natural England}, year = {2017}, @@ -601,7 +570,7 @@ @unpublished{wallace2017 } @unpublished{wallace2018, - title = {Monitoring of forest removal and groundworks to rejuvenate dunes at Newborough Warren - Ynys Llanddwyn SSSI. Vegetation change, third year results for 2017}, + title = {Monitoring of forest removal and groundworks to rejuvenate dunes at {{Newborough}} {{Warren}} - {{Ynys}} {{Llanddwyn}} SSSI. Vegetation change, third year results for 2017}, author = {Wallace, Hilary and Jones, Laurence}, address = {Bangor, Wales}, publisher = {NERC/Centre for Ecology \& Hydrology}, @@ -631,7 +600,6 @@ @article{wickham2019 doi = {10.21105/joss.01686} } - @article{wood2015, title = {Woodland Survey of Great Britain 1971-2001}, volume = {7}, @@ -647,46 +615,38 @@ @article{wood2015 pages = {203-214} } -@misc{xie2024b, - title = {{bookdown}: {{Authoring Books}} and {{Technical Documents}} with {{R Markdown}}}, - author = {Xie, Yihui and Dervieux, Christophe and Allaire, J. J. and Kim, Albert and {Samuel-Rosa}, Alessandro and Oles, Andrzej and Yasumoto, Atsushi and Frederik, Aust and Quast, Bastiaan and Marwick, Ben and Ismay, Chester and Franklund, Clifton and Emaasit, Daniel and Shuman, David and Attali, Dean and Tyre, Drew and Valentiner, Ellis and van Dunne, Frans and Wickham, Hadley and Allen, Jeff and Bryan, Jennifer and McPhers, Jonathan and Seo, JooYoung and Robbins, Joyce and Huang, Junwen and Cheung, Kevin and Ushey, Kevin and Seonghyun, Kim and Muller, Kirill and Selzer, Luciano and Lincoln, Matthew and Held, Maximilian and Sachs, Michael and Bojanowski, Michal and Werth, Nathan and Ross, Noam and Hickey, Peter and Marinho, Pedro Rafael D. and Lesur, Romain and Bhatnagar, Sahir and Dekel, Shir and Simpson, Steve and Onkelinx, Thierry and Fulco, Vincent and Qiu, Yixuan and Dong, Zhuoer and Szopka, Bartek and Rocha, Zeno}, - year = {2024}, - month = jul, - urldate = {2024-07-08}, - abstract = {Output formats and utilities for authoring books and technical documents with R Markdown.}, - copyright = {GPL-3}, - doi = {10.32614/CRAN.package.bookdown} +@book{xie2024a, + title = {{bookdown}: Authoring Books and Technical Documents with {R} Markdown}, + author = {Yihui Xie}, + publisher = {Chapman and Hall/CRC}, + address = {Boca Raton, Florida}, + year = {2016}, + isbn = {978-1138700109}, + url = {https://bookdown.org/yihui/bookdown} } @misc{xie2024c, - title = {{knitr}: {{A General-Purpose Package}} for {{Dynamic Report Generation}} in {{R}}}, - author = {Xie, Yihui and Sarma, Abhraneel and Vogt, Adam and Andrew, Alastair and Zvoleff, Alex and {Al-Zubaidi}, Amar and Simon, Andre and Atkins, Aron and Wolen, Aaron and Manton, Ashley and Yasumoto, Atsushi and Baumer, Ben and Diggs, Brian and Zhang, Brian and Yapparov, Bulat and Pereira, Cassio and Dervieux, Christophe and Hall, David and {Hugh-Jones}, David and Robinson, David and Hemken, Doug and Murdoch, Duncan and Campitelli, Elio and Hughes, Ellis and Riederer, Emily and Hirschmann, Fabian and Simeon, Fitch and Fang, Forest and Harrell Jr, Frank E. and {Aden-Buie}, Garrick and Detrez, Gregoire and Wickham, Hadley and Zhu, Hao and Jeon, Heewon and Bengtsson, Henrik and Yutani, Hiroaki and Lyttle, Ian and Daniel, Hodges and Bien, Jacob and Burkhead, Jake and Manton, James and Lander, Jared and Punyon, Jason and Luraschi, Javier and Arnold, Jeff and Bryan, Jenny and Ashkenas, Jeremy and Stephens, Jeremy and Hester, Jim and Cheng, Joe and Ranke, Johannes and Honaker, John and Muschelli, John and Keane, Jonathan and Allaire, J. J. and Toloe, Johan and Sidi, Jonathan and Larmarange, Joseph and Barnier, Julien and Zhong, Kaiyin and Slowikowski, Kamil and Forner, Karl and Smith, Kevin K. and Mueller, Kirill and Takahashi, Kohske and Walthert, Lorenz and Gallindo, Lucas and Hofert, Marius and Modr{\'a}k, Martin and Chirico, Michael and Friendly, Michael and Bojanowski, Michal and Kuhlmann, Michel and Patrick, Miller and Caballero, Nacho and Salkowski, Nick and Hansen, Niels Richard and Ross, Noam and Mahdi, Obada and Krivitsky, Pavel N. and Faria, Pedro and Li, Qiang and Vaidyanathan, Ramnath and Cotton, Richard and Krzyzanowski, Robert and Copetti, Rodrigo and Francois, Romain and Williamson, Ruaridh and Mati, Sagiru and Kostyshak, Scott and Meyer, Sebastian and Brouwer, Sietse and de Bernard, Simon and Rousseau, Sylvain and Wei, Taiyun and Assus, Thibaut and Lamadon, Thibaut and Leeper, Thomas and Mastny, Tim and {Torsney-Weir}, Tom and Davis, Trevor and Veitas, Viktoras and Zhu, Weicheng and Wu, Wush and Foster, Zachary and Kamvar, Zhian N. and {Posit PBC}}, - year = {2024}, - month = jul, - urldate = {2024-07-08}, - copyright = {GPL-2 {\textbar} GPL-3 [expanded from: GPL]}, - doi = {10.32614/CRAN.package.knitr} + title = {{knitr}: A General-Purpose Package for Dynamic Report Generation in {R}}, + author = {Yihui Xie}, + year = {2024}, + note = {R package version 1.46}, + doi = {10.32614/CRAN.package.knitr} } @misc{xie2024d, - title = {{markdown}: {{Render Markdown}} with 'Commonmark'}, - author = {Xie, Yihui and Allaire, J. J. and Horner, Jeffrey and Bengtsson, Henrik and Hester, Jim and Qiu, Yixuan and Takahashi, Kohske and November, Adam and Caballero, Nacho and Ooms, Jeroen and Leeper, Thomas and Cheng, Joe and Oles, Andrzej and {Posit PBC}}, - year = {2024}, - month = jun, - urldate = {2024-07-08}, - copyright = {MIT + file LICENSE}, - keywords = {ReproducibleResearch}, - doi = {10.32614/CRAN.package.markdown} + title = {{markdown}: {{Render Markdown}} with 'Commonmark'}, + author = {Yihui Xie and JJ Allaire and Jeffrey Horner}, + year = {2023}, + note = {R package version 1.12}, + doi = {10.32614/CRAN.package.markdown} } @misc{zhu2024a, - title = {{{kableExtra}}: {{Construct Complex Table}} with 'kable' and {{Pipe Syntax}}}, - shorttitle = {{{kableExtra}}}, - author = {Zhu, Hao and Travison, Thomas and Tsai, Timothy and Beasley, Will and Xie, Yihui and Yu, GuangChuang and Laurent, St{\'e}phane and Shepherd, Rob and Sidi, Yoni and Salzer, Brian and Gui, George and Fan, Yeliang and Murdoch, Duncan and {Arel-Bundock}, Vincent and Evans, Bill}, - year = {2024}, - month = jan, - urldate = {2024-07-08}, - doi = {10.32614/CRAN.package.kableExtra} + title = {{{kableExtra}}: {{Construct Complex Table}} with 'kable' and {{Pipe Syntax}}}, + author = {Hao Zhu}, + year = {2024}, + note = {R package version 1.4.0}, + doi = {10.32614/CRAN.package.kableExtra} } diff --git a/JOSS/paper.html b/JOSS/paper.html index a34317c..e2f0998 100644 --- a/JOSS/paper.html +++ b/JOSS/paper.html @@ -391,7 +391,7 @@

Summary

established and recognised practice (Maciejewski et al. 2020). The results of this assignment process are used in various ways, including assisting in the phase 2 habitat survey (or NVC -survey) (Rodwell 2006) process; +survey) process (Rodwell 2006); establishing an ecological baseline and identifying important ecological features such as protected habitats (CIEEM 2022); and in ecological restoration by providing a proxy for @@ -562,25 +562,30 @@

Data sources and dependencies

2000), and 4) Newborough Warren (Wallace and Jones 2018).

Version 1.0 of RMAVIS was built under R 4.4.0 (R Core Team 2024) and depends on the -bookdown (Xie, Dervieux, et al. -2024), bsicons (Sievert, -Posit PBC, and Otto 2023), bslib (Sievert et al. 2024), dplyr (Wickham et al. 2019), ggplot2 -(Wickham et al. 2019), -htmltools (Cheng et al. -2024), htmlwidgets (Vaidyanathan et al. 2023), -kableExtra (Zhu et al. 2024), -knitr (Xie, Sarma, et al. -2024), magrittr (Bache et al. +bookdown (Xie 2016), +bsicons (Sievert 2023), +bslib (Sievert, Cheng, and Aden-Buie +2024), dplyr (Wickham et al. +2019), ggplot2 (Wickham et +al. 2019), htmltools (Cheng +et al. 2024), htmlwidgets (Vaidyanathan et al. 2023), +kableExtra (Zhu 2024), +knitr (Xie 2024), +magrittr (Bache and Wickham 2022), markdown (Xie, -Allaire, et al. 2024), plotly (Sievert 2020), purrr (Wickham et al. 2019), reactable -(Lin et al. 2023), readr -(Wickham et al. 2019), -rhandsontable (Owen et al. -2021), rmarkdown (Allaire et -al. 2024), shiny (Chang et -al. 2024), shinybusy (Meyer, -Perrier, and Technologies 2024), shinyjs (Attali 2021), shinyWidgets (Perrier et al. 2024), stringr(Wickham et al. 2019), tibble (Wickham et al. 2019), tidyr (Wickham et al. 2019), vegan (Oksanen et al. 2024), and writexl -(Ooms and McNamara 2024) R packages.

+Allaire, and Horner 2023), plotly (Sievert 2020), purrr (Wickham et al. 2019), reactable +(Lin 2023), readr (Wickham et al. 2019), +rhandsontable (Owen 2021), +rmarkdown (Allaire et al. +2024), shiny (Chang et al. +2024), shinybusy (Meyer and +Perrier 2024), shinyjs (Attali 2021), shinyWidgets (Perrier, Meyer, and Granjon 2024), +stringr(Wickham et al. 2019), +tibble (Wickham et al. 2019), +tidyr (Wickham et al. 2019), +vegan (Oksanen et al. 2022), +and writexl (Ooms 2024) R +packages.

Conclusion

@@ -609,8 +614,8 @@

Acknowledgements

References

-Allaire, J. J., Yihui Xie, Christophe Dervieux, Jonathan McPherson, -Javier Luraschi, Kevin Ushey, Aron Atkins, et al. 2024. “rmarkdown: Dynamic Documents for +Allaire, JJ, Yihui Xie, Christophe Dervieux, Jonathan McPherson, Javier +Luraschi, Kevin Ushey, Aron Atkins, et al. 2024. “rmarkdown: Dynamic Documents for R.” https://doi.org/10.32614/CRAN.package.rmarkdown.
@@ -619,9 +624,8 @@

References

Your Shiny Apps in Seconds.” https://doi.org/10.32614/CRAN.package.shinyjs.
-Bache, Stefan Milton, Hadley Wickham, Lionel Henry, and Posit PBC. 2022. -“magrittr: A Forward-Pipe -Operator for R.” https://doi.org/10.32614/CRAN.package.magrittr. +Bache, Stefan Milton, and Hadley Wickham. 2022. “magrittr: A Forward-Pipe Operator for +R.” https://doi.org/10.32614/CRAN.package.magrittr.
BSBI. 2017a. “Ellenberg Indicator R @@ -656,20 +660,20 @@

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diff --git a/JOSS/paper.md b/JOSS/paper.md index 24fb550..5ae1263 100644 --- a/JOSS/paper.md +++ b/JOSS/paper.md @@ -43,7 +43,7 @@ classification units using computational methods is a well established and recognised practice [@maciejewski2020]. The results of this assignment process are used in various ways, including assisting in the phase 2 habitat survey -(or NVC survey) [@rodwell2006national] process; +(or NVC survey) process [@rodwell2006national]; establishing an ecological baseline and identifying important ecological features such as protected habitats [@cieem2022]; and in ecological restoration by providing a proxy for historical reference @@ -145,7 +145,7 @@ and 4) Newborough Warren [@wallace2018]. Version 1.0 of `RMAVIS` was built under R 4.4.0 [@rcoreteam] and depends on the -`bookdown` [@xie2024b], +`bookdown` [@xie2024a], `bsicons` [@sievert2023a], `bslib` [@sievert2024a], `dplyr` [@wickham2019],