manual-references.bib

@misc{https://git-scm.com/book/en/v2/Getting-Started-A-Short-History-of-Git,
	title = {Git - {A} {Short} {History} of {Git}},
	url = {https://git-scm.com/book/en/v2/Getting-Started-A-Short-History-of-Git},
	urldate = {2023-03-08},
}

@misc{https://happygitwithr.com,
	title = {Happy {Git} with {R}},
	url = {https://happygitwithr.com},
	urldate = {2023-03-08},
}

@misc{https://ourcodingclub.github.io,
	title = {Our {Coding} {Club}},
	url = {https://ourcodingclub.github.io},
	urldate = {2023-03-08},
}

@misc{https://ghdocs-prod.azurewebsites.net/en/repositories/working-with-files/managing-large-files/about-large-files-on-github,
	title = {About {Large} {Files} on {GitHub}},
	url = {https://ghdocs-prod.azurewebsites.net/en/repositories/working-with-files/managing-large-files/about-large-files-on-github},
	urldate = {2023-03-08},
}

@software{10.5281/zenodo.6097109,
  author       = {Emma Hudgins},
  title        = {Data and code for '{Hotspots} of pest‐induced US urban tree death, 2020–2050', published in {Journal} of {Applied} {Ecology}},
  month        = feb,
  year         = 2022,
  publisher    = {Zenodo},
  version      = {published},
  doi          = {10.5281/zenodo.6097109},
  url          = {https://doi.org/10.5281/zenodo.6097109}
}


@article{10.1111/geb.13346,
author = {Sabatini, Francesco Maria and Lenoir, Jonathan and Hattab, Tarek and Arnst, Elise Aimee and Chytrý, Milan and Dengler, Jürgen and De Ruffray, Patrice and Hennekens, Stephan M. and Jandt, Ute and Jansen, Florian and Jiménez-Alfaro, Borja and Kattge, Jens and Levesley, Aurora and Pillar, Valério D. and Purschke, Oliver and Sandel, Brody and Sultana, Fahmida and Aavik, Tsipe and Aćić, Svetlana and Acosta, Alicia T. R. and Agrillo, Emiliano and Alvarez, Miguel and Apostolova, Iva and Arfin Khan, Mohammed A. S. and Arroyo, Luzmila and Attorre, Fabio and Aubin, Isabelle and Banerjee, Arindam and Bauters, Marijn and Bergeron, Yves and Bergmeier, Erwin and Biurrun, Idoia and Bjorkman, Anne D. and Bonari, Gianmaria and Bondareva, Viktoria and Brunet, Jörg and Čarni, Andraž and Casella, Laura and Cayuela, Luis and Černý, Tomáš and Chepinoga, Victor and Csiky, János and Ćušterevska, Renata and De Bie, Els and de Gasper, André Luis and De Sanctis, Michele and Dimopoulos, Panayotis and Dolezal, Jiri and Dziuba, Tetiana and El-Sheikh, Mohamed Abd El-Rouf Mousa and Enquist, Brian and Ewald, Jörg and Fazayeli, Farideh and Field, Richard and Finckh, Manfred and Gachet, Sophie and Galán-de-Mera, Antonio and Garbolino, Emmanuel and Gholizadeh, Hamid and Giorgis, Melisa and Golub, Valentin and Alsos, Inger Greve and Grytnes, John-Arvid and Guerin, Gregory Richard and Gutiérrez, Alvaro G. and Haider, Sylvia and Hatim, Mohamed Z. and Hérault, Bruno and Hinojos Mendoza, Guillermo and Hölzel, Norbert and Homeier, Jürgen and Hubau, Wannes and Indreica, Adrian and Janssen, John A. M. and Jedrzejek, Birgit and Jentsch, Anke and Jürgens, Norbert and Kącki, Zygmunt and Kapfer, Jutta and Karger, Dirk Nikolaus and Kavgacı, Ali and Kearsley, Elizabeth and Kessler, Michael and Khanina, Larisa and Killeen, Timothy and Korolyuk, Andrey and Kreft, Holger and Kühl, Hjalmar S. and Kuzemko, Anna and Landucci, Flavia and Lengyel, Attila and Lens, Frederic and Lingner, Débora Vanessa and Liu, Hongyan and Lysenko, Tatiana and Mahecha, Miguel D. and Marcenò, Corrado and Martynenko, Vasiliy and Moeslund, Jesper Erenskjold and Monteagudo Mendoza, Abel and Mucina, Ladislav and Müller, Jonas V. and Munzinger, Jérôme and Naqinezhad, Alireza and Noroozi, Jalil and Nowak, Arkadiusz and Onyshchenko, Viktor and Overbeck, Gerhard E. and Pärtel, Meelis and Pauchard, Aníbal and Peet, Robert K. and Peñuelas, Josep and Pérez-Haase, Aaron and Peterka, Tomáš and Petřík, Petr and Peyre, Gwendolyn and Phillips, Oliver L. and Prokhorov, Vadim and Rašomavičius, Valerijus and Revermann, Rasmus and Rivas-Torres, Gonzalo and Rodwell, John S. and Ruprecht, Eszter and Rūsiņa, Solvita and Samimi, Cyrus and Schmidt, Marco and Schrodt, Franziska and Shan, Hanhuai and Shirokikh, Pavel and Šibík, Jozef and Šilc, Urban and Sklenář, Petr and Škvorc, Željko and Sparrow, Ben and Sperandii, Marta Gaia and Stančić, Zvjezdana and Svenning, Jens-Christian and Tang, Zhiyao and Tang, Cindy Q. and Tsiripidis, Ioannis and Vanselow, Kim André and Vásquez Martínez, Rodolfo and Vassilev, Kiril and Vélez-Martin, Eduardo and Venanzoni, Roberto and Vibrans, Alexander Christian and Violle, Cyrille and Virtanen, Risto and von Wehrden, Henrik and Wagner, Viktoria and Walker, Donald A. and Waller, Donald M. and Wang, Hua-Feng and Wesche, Karsten and Whitfeld, Timothy J. S. and Willner, Wolfgang and Wiser, Susan K. and Wohlgemuth, Thomas and Yamalov, Sergey and Zobel, Martin and Bruelheide, Helge},
title = {sPlotOpen – An environmentally balanced, open-access, global dataset of vegetation plots},
journal = {Global Ecology and Biogeography},
volume = {30},
number = {9},
pages = {1740-1764},
keywords = {big data, biodiversity, biogeography, database, functional traits, macroecology, vascular plants, vegetation plots},
doi = {10.1111/geb.13346},
url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/geb.13346},
eprint = {https://onlinelibrary-wiley-com.lib-ezproxy.concordia.ca/doi/pdf/10.1111/geb.13346},
abstract = {Abstract Motivation Assessing biodiversity status and trends in plant communities is critical for understanding, quantifying and predicting the effects of global change on ecosystems. Vegetation plots record the occurrence or abundance of all plant species co-occurring within delimited local areas. This allows species absences to be inferred, information seldom provided by existing global plant datasets. Although many vegetation plots have been recorded, most are not available to the global research community. A recent initiative, called ‘sPlot’, compiled the first global vegetation plot database, and continues to grow and curate it. The sPlot database, however, is extremely unbalanced spatially and environmentally, and is not open-access. Here, we address both these issues by (a) resampling the vegetation plots using several environmental variables as sampling strata and (b) securing permission from data holders of 105 local-to-regional datasets to openly release data. We thus present sPlotOpen, the largest open-access dataset of vegetation plots ever released. sPlotOpen can be used to explore global diversity at the plant community level, as ground truth data in remote sensing applications, or as a baseline for biodiversity monitoring. Main types of variable contained Vegetation plots (n = 95,104) recording cover or abundance of naturally co-occurring vascular plant species within delimited areas. sPlotOpen contains three partially overlapping resampled datasets (c. 50,000 plots each), to be used as replicates in global analyses. Besides geographical location, date, plot size, biome, elevation, slope, aspect, vegetation type, naturalness, coverage of various vegetation layers, and source dataset, plot-level data also include community-weighted means and variances of 18 plant functional traits from the TRY Plant Trait Database. Spatial location and grain Global, 0.01–40,000 m². Time period and grain 1888–2015, recording dates. Major taxa and level of measurement 42,677 vascular plant taxa, plot-level records. Software format Three main matrices (.csv), relationally linked.},
year = {2021}
}