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The ade4 Package: Implementing the Duality Diagram for Ecologists

Citations

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Cited by:

  1. Juan Carlos Suárez Salazar & Marie Ange Ngo Bieng & Luz Marina Melgarejo & Julio A Di Rienzo & Fernando Casanoves, 2018. "First typology of cacao (Theobroma cacao L.) systems in Colombian Amazonia, based on tree species richness, canopy structure and light availability," PLOS ONE, Public Library of Science, vol. 13(2), pages 1-20, February.
  2. Raja Ponnuchamy & Vincent Bonhomme & Srinivasan Prasad & Lipi Das & Prakash Patel & Cédric Gaucherel & Arunachalam Pragasam & Krishnamurthy Anupama, 2014. "Honey Pollen: Using Melissopalynology to Understand Foraging Preferences of Bees in Tropical South India," PLOS ONE, Public Library of Science, vol. 9(7), pages 1-11, July.
  3. repec:jss:jstsof:30:i12 is not listed on IDEAS
  4. Wenzel Kröber & Martin Böhnke & Erik Welk & Christian Wirth & Helge Bruelheide, 2012. "Leaf Trait-Environment Relationships in a Subtropical Broadleaved Forest in South-East China," PLOS ONE, Public Library of Science, vol. 7(4), pages 1-11, April.
  5. Simon Chamaillé-Jammes & Anaïs Charbonnel & Stéphane Dray & Hillary Madzikanda & Hervé Fritz, 2016. "Spatial Distribution of a Large Herbivore Community at Waterholes: An Assessment of Its Stability over Years in Hwange National Park, Zimbabwe," PLOS ONE, Public Library of Science, vol. 11(4), pages 1-13, April.
  6. Pavel Covali & Henn Raave & Jordi Escuer-Gatius & Allan Kaasik & Tõnu Tõnutare & Alar Astover, 2021. "The Effect of Untreated and Acidified Biochar on NH 3 -N Emissions from Slurry Digestate," Sustainability, MDPI, vol. 13(2), pages 1-19, January.
  7. Rune B Jakobsen & Esben Østrup & Xiaolan Zhang & Tarjei S Mikkelsen & Jan E Brinchmann, 2014. "Analysis of the Effects of Five Factors Relevant to In Vitro Chondrogenesis of Human Mesenchymal Stem Cells Using Factorial Design and High Throughput mRNA-Profiling," PLOS ONE, Public Library of Science, vol. 9(5), pages 1-13, May.
  8. P Dilip Venugopal & Galen P Dively & Ames Herbert & Sean Malone & Joanne Whalen & William O Lamp, 2016. "Contrasting Role of Temperature in Structuring Regional Patterns of Invasive and Native Pestilential Stink Bugs," PLOS ONE, Public Library of Science, vol. 11(2), pages 1-19, February.
  9. Buhmann, Anne K. & Waller, Uwe & Wecker, Bert & Papenbrock, Jutta, 2015. "Optimization of culturing conditions and selection of species for the use of halophytes as biofilter for nutrient-rich saline water," Agricultural Water Management, Elsevier, vol. 149(C), pages 102-114.
  10. Lisset Pérez Marulanda & Patrick Lavelle & Martin Rudbeck Jepsen & Augusto Castro-Nunez & Wendy Francesconi & Karen Camilo & Martha Vanegas-Cubillos & Miguel Antonio Romero & Juan Carlos Suárez & Anto, 2020. "Farmscape Composition and Livelihood Sustainability in Deforested Landscapes of Colombian Amazonia," Agriculture, MDPI, vol. 10(12), pages 1-20, November.
  11. Carole Camarasa & Isabelle Sanchez & Pascale Brial & Frédéric Bigey & Sylvie Dequin, 2011. "Phenotypic Landscape of Saccharomyces cerevisiae during Wine Fermentation: Evidence for Origin-Dependent Metabolic Traits," PLOS ONE, Public Library of Science, vol. 6(9), pages 1-12, September.
  12. Pointurier, Olivia & Moreau, Delphine & Pagès, Loïc & Caneill, Jacques & Colbach, Nathalie, 2021. "Individual-based 3D modelling of root systems in heterogeneous plant canopies at the multiannual scale. Case study with a weed dynamics model," Ecological Modelling, Elsevier, vol. 440(C).
  13. Pengfei Song & Wen Qin & YanGan Huang & Lei Wang & Zhenyuan Cai & Tongzuo Zhang, 2020. "Grazing Management Influences Gut Microbial Diversity of Livestock in the Same Area," Sustainability, MDPI, vol. 12(10), pages 1-12, May.
  14. Cláudia Oliveira & Jonathan Bouquerel & Xavier Rochel & Nasrin Karimi-Moayed & Dimitri Vandenberghe & Johan De Grave & Koen Deforce & Simon Devin & Vincent Robin, 2022. "Woodland Management as Major Energy Supply during the Early Industrialization: A Multiproxy Analysis in the Northwest European Lowlands," Land, MDPI, vol. 11(4), pages 1-17, April.
  15. Angélique Richard & Loïs Boullu & Ulysse Herbach & Arnaud Bonnafoux & Valérie Morin & Elodie Vallin & Anissa Guillemin & Nan Papili Gao & Rudiyanto Gunawan & Jérémie Cosette & Ophélie Arnaud & Jean-Ja, 2016. "Single-Cell-Based Analysis Highlights a Surge in Cell-to-Cell Molecular Variability Preceding Irreversible Commitment in a Differentiation Process," PLOS Biology, Public Library of Science, vol. 14(12), pages 1-35, December.
  16. Angélica Ochoa-Beltrán & Johanna Andrea Martínez-Villa & Peter G. Kennedy & Beatriz Salgado-Negret & Alvaro Duque, 2021. "Plant Trait Assembly in Species-Rich Forests at Varying Elevations in the Northwest Andes of Colombia," Land, MDPI, vol. 10(10), pages 1-15, October.
  17. Jean-Pierre Rossi & Maxime Nardin & Martin Godefroid & Manuela Ruiz-Diaz & Anne-Sophie Sergent & Alejandro Martinez-Meier & Luc Pâques & Philippe Rozenberg, 2014. "Dissecting the Space-Time Structure of Tree-Ring Datasets Using the Partial Triadic Analysis," PLOS ONE, Public Library of Science, vol. 9(9), pages 1-13, September.
  18. Raphaëlle Momal & Stéphane Robin & Christophe Ambroise, 2021. "Accounting for missing actors in interaction network inference from abundance data," Journal of the Royal Statistical Society Series C, Royal Statistical Society, vol. 70(5), pages 1230-1258, November.
  19. Lorena Muñoz & Vera Helene Hausner, 2013. "What Do the IUCN Categories Really Protect? A Case Study of the Alpine Regions in Spain," Sustainability, MDPI, vol. 5(6), pages 1-22, May.
  20. Vanwindekens, Frédéric M. & Baret, Philippe V. & Stilmant, Didier, 2014. "A new approach for comparing and categorizing farmers’ systems of practice based on cognitive mapping and graph theory indicators," Ecological Modelling, Elsevier, vol. 274(C), pages 1-11.
  21. Diana E Lopez & Romain Frelat & Lone B Badstue, 2022. "Towards gender-inclusive innovation: Assessing local conditions for agricultural targeting," PLOS ONE, Public Library of Science, vol. 17(3), pages 1-25, March.
  22. Gabriel Šaffa & Anna Maria Kubicka & Martin Hromada & Karen Leslie Kramer, 2019. "Is the timing of menarche correlated with mortality and fertility rates?," PLOS ONE, Public Library of Science, vol. 14(4), pages 1-15, April.
  23. Marta Teston & Matteo Orsi & Giovanni Bittante & Alessio Cecchinato & Luigi Gallo & Paola Gatto & Lucio Flavio Macedo Mota & Maurizio Ramanzin & Salvatore Raniolo & Antonella Tormen & Enrico Sturaro, 2022. "Added Value of Local Sheep Breeds in Alpine Agroecosystems," Sustainability, MDPI, vol. 14(8), pages 1-18, April.
  24. Sara Rachik & Urania Christaki & Luen Luen Li & Savvas Genitsaris & Elsa Breton & Sébastien Monchy, 2018. "Diversity and potential activity patterns of planktonic eukaryotic microbes in a mesoeutrophic coastal area (eastern English Channel)," PLOS ONE, Public Library of Science, vol. 13(5), pages 1-26, May.
  25. Marion Darnaud & Filipe Vadder & Pascaline Bogeat & Lilia Boucinha & Anne-Laure Bulteau & Andrei Bunescu & Céline Couturier & Ana Delgado & Hélène Dugua & Céline Elie & Alban Mathieu & Tereza Novotná , 2021. "A standardized gnotobiotic mouse model harboring a minimal 15-member mouse gut microbiota recapitulates SOPF/SPF phenotypes," Nature Communications, Nature, vol. 12(1), pages 1-21, December.
  26. Zonlehoua Coulibali & Athyna Nancy Cambouris & Serge-Étienne Parent, 2020. "Cultivar-specific nutritional status of potato (Solanum tuberosum L.) crops," PLOS ONE, Public Library of Science, vol. 15(3), pages 1-15, March.
  27. Alessandro Bellino & Daniela Baldantoni & Vittoria Milano & Lucia Santorufo & Jérôme Cortet & Giulia Maisto, 2021. "Spatial Patterns and Scales of Collembola Taxonomic and Functional Diversity in Urban Parks," Sustainability, MDPI, vol. 13(23), pages 1-11, November.
  28. Colléter, Mathieu & Valls, Audrey & Guitton, Jérôme & Gascuel, Didier & Pauly, Daniel & Christensen, Villy, 2015. "Global overview of the applications of the Ecopath with Ecosim modeling approach using the EcoBase models repository," Ecological Modelling, Elsevier, vol. 302(C), pages 42-53.
  29. Jonas Eberle & Renier Myburgh & Dirk Ahrens, 2014. "The Evolution of Morphospace in Phytophagous Scarab Chafers: No Competition - No Divergence?," PLOS ONE, Public Library of Science, vol. 9(5), pages 1-16, May.
  30. Anna Favati & Josefina Zidar & Hanne Thorpe & Per Jensen & Hanne Løvlie, 2016. "The ontogeny of personality traits in the red junglefowl, Gallus gallus," Behavioral Ecology, International Society for Behavioral Ecology, vol. 27(2), pages 484-493.
  31. Keith Hunley & Kiela Gwin & Brendan Liberman, 2016. "A Reassessment of the Impact of European Contact on the Structure of Native American Genetic Diversity," PLOS ONE, Public Library of Science, vol. 11(8), pages 1-17, August.
  32. Hui, Francis K.C., 2017. "Model-based simultaneous clustering and ordination of multivariate abundance data in ecology," Computational Statistics & Data Analysis, Elsevier, vol. 105(C), pages 1-10.
  33. Merel A. J. Hofmeijer & Bo Melander & Jukka Salonen & Anneli Lundkvist & Livija Zarina & Bärbel Gerowitt, 2021. "Weed Species Trait Selection as Shaped by Region and Crop Diversity in Organically Managed Spring Cereals," Agriculture, MDPI, vol. 11(5), pages 1-17, May.
  34. Liesbeth François & Katrien Wijnrocx & Frédéric G Colinet & Nicolas Gengler & Bettine Hulsegge & Jack J Windig & Nadine Buys & Steven Janssens, 2017. "Genomics of a revived breed: Case study of the Belgian campine cattle," PLOS ONE, Public Library of Science, vol. 12(4), pages 1-14, April.
  35. Notaro, Martin & Gary, Christian & Le Coq, Jean-François & Metay, Aurélie & Rapidel, Bruno, 2022. "How to increase the joint provision of ecosystem services by agricultural systems. Evidence from coffee-based agroforestry systems," Agricultural Systems, Elsevier, vol. 196(C).
  36. Aurea Grané & Alpha A. Sow-Barry, 2021. "Visualizing Profiles of Large Datasets of Weighted and Mixed Data," Mathematics, MDPI, vol. 9(8), pages 1-20, April.
  37. repec:jss:jstsof:34:i10 is not listed on IDEAS
  38. Serra W. Buchanan & Megan Baskerville & Maren Oelbermann & Andrew M. Gordon & Naresh V. Thevathasan & Marney E. Isaac, 2020. "Plant Diversity and Agroecosystem Function in Riparian Agroforests: Providing Ecosystem Services and Land-Use Transition," Sustainability, MDPI, vol. 12(2), pages 1-12, January.
  39. Vasilios Liordos & Jukka Jokimäki & Marja-Liisa Kaisanlahti-Jokimäki & Evangelos Valsamidis & Vasileios J. Kontsiotis, 2021. "Niche Analysis and Conservation of Bird Species Using Urban Core Areas," Sustainability, MDPI, vol. 13(11), pages 1-15, June.
  40. J Roman Arguello & Carolina Sellanes & Yann Ru Lou & Robert A Raguso, 2013. "Can Yeast (S. cerevisiae) Metabolic Volatiles Provide Polymorphic Signaling?," PLOS ONE, Public Library of Science, vol. 8(8), pages 1-12, August.
  41. Clairotte, M. & Adam, T.W. & Zardini, A.A. & Manfredi, U. & Martini, G. & Krasenbrink, A. & Vicet, A. & Tournié, E. & Astorga, C., 2013. "Effects of low temperature on the cold start gaseous emissions from light duty vehicles fuelled by ethanol-blended gasoline," Applied Energy, Elsevier, vol. 102(C), pages 44-54.
  42. repec:jss:jstsof:22:i01 is not listed on IDEAS
  43. Luca Freschi & Roger Vargas & Ashaque Husain & S. M. Mostofa Kamal & Alena Skrahina & Sabira Tahseen & Nazir Ismail & Anna Barbova & Stefan Niemann & Daniela Maria Cirillo & Anna S. Dean & Matteo Zign, 2021. "Population structure, biogeography and transmissibility of Mycobacterium tuberculosis," Nature Communications, Nature, vol. 12(1), pages 1-11, December.
  44. Catharine Prussing & Kevin J Emerson & Sara A Bickersmith & Maria Anice Mureb Sallum & Jan E Conn, 2019. "Minimal genetic differentiation of the malaria vector Nyssorhynchus darlingi associated with forest cover level in Amazonian Brazil," PLOS ONE, Public Library of Science, vol. 14(11), pages 1-16, November.
  45. María Concepción Vega-Hernández & Carmen Patino-Alonso, 2021. "Comparing COSTATIS and Generalized Procrustes Analysis with Multi-Way Public Education Expenditure Data," Mathematics, MDPI, vol. 9(15), pages 1-13, July.
  46. repec:jss:jstsof:29:i08 is not listed on IDEAS
  47. Gaurav Thareja & Sweety Mathew & Lisa S Mathew & Yasmin Ali Mohamoud & Karsten Suhre & Joel A Malek, 2018. "Genotyping-by-sequencing identifies date palm clone preference in agronomics of the State of Qatar," PLOS ONE, Public Library of Science, vol. 13(12), pages 1-11, December.
  48. repec:jss:jstsof:25:i03 is not listed on IDEAS
  49. Eltohamy A A Yousef & Thomas Müller & Andreas Börner & Karl J Schmid, 2018. "Comparative analysis of genetic diversity and differentiation of cauliflower (Brassica oleracea var. botrytis) accessions from two ex situ genebanks," PLOS ONE, Public Library of Science, vol. 13(2), pages 1-19, February.
  50. Juan P. Chavarro-Bermeo & Bruna Arruda & Dúber A. Mora-Motta & Wilfrand Bejarano-Herrera & Fausto A. Ortiz-Morea & Anil Somenahally & Adriana M. Silva-Olaya, 2022. "Responses of Soil Phosphorus Fractions to Land-Use Change in Colombian Amazon," Sustainability, MDPI, vol. 14(4), pages 1-14, February.
  51. repec:jss:jstsof:22:i06 is not listed on IDEAS
  52. Natalia Porto & Victoria Dowbley & Carolina Inés García, 2020. "Estrategias de turismo en la Provincia de Buenos Aires. Una clasificación regional utilizando análisis multivariado," CEFIP, Working Papers 035, CEFIP, Universidad Nacional de La Plata.
  53. Elena Arciero & Sufyan A. Dogra & Daniel S. Malawsky & Massimo Mezzavilla & Theofanis Tsismentzoglou & Qin Qin Huang & Karen A. Hunt & Dan Mason & Saghira Malik Sharif & David A. Heel & Eamonn Sherida, 2021. "Fine-scale population structure and demographic history of British Pakistanis," Nature Communications, Nature, vol. 12(1), pages 1-16, December.
  54. Beaton, Derek & Chin Fatt, Cherise R. & Abdi, Hervé, 2014. "An ExPosition of multivariate analysis with the singular value decomposition in R," Computational Statistics & Data Analysis, Elsevier, vol. 72(C), pages 176-189.
  55. Ramón Giraldo & William Caballero & Jesús Camacho-Tamayo, 2018. "Mantel test for spatial functional data," AStA Advances in Statistical Analysis, Springer;German Statistical Society, vol. 102(1), pages 21-39, January.
  56. Marcon, Eric & Hérault, Bruno, 2015. "entropart: An R Package to Measure and Partition Diversity," Journal of Statistical Software, Foundation for Open Access Statistics, vol. 67(i08).
  57. Hammond, Jim & Rosenblum, Nathaniel & Breseman, Dana & Gorman, Léo & Manners, Rhys & van Wijk, Mark T. & Sibomana, Milindi & Remans, Roseline & Vanlauwe, Bernard & Schut, Marc, 2020. "Towards actionable farm typologies: Scaling adoption of agricultural inputs in Rwanda," Agricultural Systems, Elsevier, vol. 183(C).
  58. Marthe Montcho & Elie Antoine Padonou & Marlise Montcho & Meshack Nzesei Mutua & Brice Sinsin, 2022. "Perception and adaptation strategies of dairy farmers towards climate variability and change in West Africa," Climatic Change, Springer, vol. 170(3), pages 1-21, February.
  59. Francisco Palomares & Néstor Fernández & Severine Roques & Cuauhtemoc Chávez & Leandro Silveira & Claudia Keller & Begoña Adrados, 2016. "Fine-Scale Habitat Segregation between Two Ecologically Similar Top Predators," PLOS ONE, Public Library of Science, vol. 11(5), pages 1-16, May.
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