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Phenopix: A R package for image-based vegetation phenology

hal.structure.identifierClimate Change Unit
dc.contributor.authorFILIPPA, Gianluca
hal.structure.identifierEnvironmental Protection Agency of Aosta Valley = Agenzia regionale protezione ambiante Valle d'Aosta [ARAP Valle Aosta]
dc.contributor.authorCREMONESE, Edoardo
hal.structure.identifierMax Planck Institute for Biogeochemistry [MPI-BGC]
dc.contributor.authorMIGLIAVACCA, Mirco
hal.structure.identifierEnvironmental Protection Agency of Aosta Valley = Agenzia regionale protezione ambiante Valle d'Aosta [ARAP Valle Aosta]
dc.contributor.authorGALVAGNO, Marta
hal.structure.identifierMax Planck Institute for Biogeochemistry [MPI-BGC]
dc.contributor.authorFORKEL, Matthias
hal.structure.identifierInteractions Sol Plante Atmosphère [UMR ISPA]
dc.contributor.authorWINGATE, Lisa
hal.structure.identifierEuropean Academy of Bozen-Bolzano [EURAC]
dc.contributor.authorTOMELLERI, Enrico
hal.structure.identifierEnvironmental Protection Agency of Aosta Valley = Agenzia regionale protezione ambiante Valle d'Aosta [ARAP Valle Aosta]
dc.contributor.authorMORRA DI CELLA, Umberto
hal.structure.identifierDepartment of Organismic and Evolutionary Biology
dc.contributor.authorRICHARDSON, Andrew D.
dc.date.accessioned2024-04-08T12:11:03Z
dc.date.available2024-04-08T12:11:03Z
dc.date.issued2016
dc.identifier.issn0168-1923
dc.identifier.urihttps://oskar-bordeaux.fr/handle/20.500.12278/196671
dc.description.abstractEnIn this paper we extensively describe new software available as a R package that allows for the extraction of phenological information from time-lapse digital photography of vegetation cover. The phenopix R package includes all steps in data processing. It enables the user to: draw a region of interest (ROI) on an image; extract red green and blue digital numbers (DN) from a seasonal series of images; depict greenness index trajectories; fit a curve to the seasonal trajectories; extract relevant phenological thresholds (phenophases); extract phenophase uncertainties. The software capabilities are illustrated by analyzing one year of data from a selection of seven sites belonging to the PhenoCam network (http://phenocam.sr.unh.edu/), including an unmanaged subalpine grassland, a tropical grassland, a deciduous needle-leaf forest, three deciduous broad-leaf temperate forests and an evergreen needle-leaf forest. One of the novelties introduced by the package is the spatially explicit, pixel-based analysis, which potentially allows to extract within-ecosystem or within-individual variability of phenology. We examine the relationship between phenophases extracted by the traditional ROI-averaged and the novel pixel-based approaches, and further illustrate potential applications of pixel-based image analysis available in the phenopix R package.
dc.language.isoen
dc.publisherElsevier Masson
dc.subject.enimage analysis
dc.subject.encommunity ecology
dc.subject.enpixel-based analysis
dc.subject.enphenology
dc.title.enPhenopix: A R package for image-based vegetation phenology
dc.typeArticle de revue
dc.identifier.doi10.1016/j.agrformet.2016.01.006
dc.subject.halSciences de l'ingénieur [physics]/Traitement du signal et de l'image
bordeaux.journalAgricultural and Forest Meteorology
bordeaux.page141-150
bordeaux.volume220
bordeaux.hal.laboratoriesInteractions Soil Plant Atmosphere (ISPA) - UMR 1391*
bordeaux.institutionBordeaux Sciences Agro
bordeaux.institutionINRAE
bordeaux.peerReviewedoui
hal.identifierhal-01541143
hal.version1
hal.popularnon
hal.audienceNon spécifiée
hal.origin.linkhttps://hal.archives-ouvertes.fr//hal-01541143v1
bordeaux.COinSctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.jtitle=Agricultural%20and%20Forest%20Meteorology&rft.date=2016&rft.volume=220&rft.spage=141-150&rft.epage=141-150&rft.eissn=0168-1923&rft.issn=0168-1923&rft.au=FILIPPA,%20Gianluca&CREMONESE,%20Edoardo&MIGLIAVACCA,%20Mirco&GALVAGNO,%20Marta&FORKEL,%20Matthias&rft.genre=article


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