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Multilevel analysis of dendroclimatic series with the R-package BIOdry

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  • Wilson Lara
  • Stella Bogino
  • Felipe Bravo

Abstract

The R-package BIOdry allows to model and compare fluctuations of Tree-ring Width (TRW) and climate, or dendroclimatic fluctuations, while accounting for source variability. The package eases multilevel modeling and multivariate comparison in dendroclimatic analysis using the nlme and ecodist packages, respectively. For implementing such libraries, the in-package algorithms transform the dendroclimatic fluctuations into Multilevel Dendroclimatic Data Series and maintain categorical variables and time units in the outputs. The dendroclimatic modeling is developed with two functions: modelFrame and muleMan. The first function binds core-level cumulative TRWs to the processed data sets and subtracts trends in TRWs by fitting multilevel log-linear growth formulas or multilevel linear formulas. modelFrame can also model within-group fluctuations in dendroclimatic variables other than tree-radial increments such as aridity indices or allometric components of tree growth: e.g. diameters at breast height over bark, tree basal areas, total tree biomass, among other. The second function compares fluctuations in modelFrame objects that share outermost categorical variable and annual records. Here, we use BIOdry to model dendroclimatic relationships in northern and east-central Spain to illustrate future users in the implementation of the package for modeling ecological relationships in space and time.

Suggested Citation

  • Wilson Lara & Stella Bogino & Felipe Bravo, 2018. "Multilevel analysis of dendroclimatic series with the R-package BIOdry," PLOS ONE, Public Library of Science, vol. 13(5), pages 1-23, May.
    • Handle: RePEc:plo:pone00:0196923
    DOI: 10.1371/journal.pone.0196923
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    1. Geoffrey B. West & James H. Brown & Brian J. Enquist, 1997. "A General Model for the Origin of Allometric Scaling Laws in Biology," Working Papers 97-03-019, Santa Fe Institute.
    2. Goslee, Sarah C. & Urban, Dean L., 2007. "The ecodist Package for Dissimilarity-based Analysis of Ecological Data," Journal of Statistical Software, Foundation for Open Access Statistics, vol. 22(i07).
    3. Jia, Z. & Luo, W., 2009. "A modified climate diagram displaying net water requirements of wetlands in arid and semi-arid regions," Agricultural Water Management, Elsevier, vol. 96(9), pages 1339-1343, September.
    4. Shi, Pei-Jian & Chen, Lei & Hui, Cang & Grissino-Mayer, Henri D., 2016. "Capture the time when plants reach their maximum body size by using the beta sigmoid growth equation," Ecological Modelling, Elsevier, vol. 320(C), pages 177-181.
    5. Jørgensen, Sven E. & Nielsen, Søren Nors & Fath, Brian D., 2016. "Recent progress in systems ecology," Ecological Modelling, Elsevier, vol. 319(C), pages 112-118.
    6. Geoffrey B. West & James H. Brown & Brian J. Enquist, 2001. "A general model for ontogenetic growth," Nature, Nature, vol. 413(6856), pages 628-631, October.
    7. Wickham, Hadley, 2011. "The Split-Apply-Combine Strategy for Data Analysis," Journal of Statistical Software, Foundation for Open Access Statistics, vol. 40(i01).
    8. Pommerening, Arne & Muszta, Anders, 2016. "Relative plant growth revisited: Towards a mathematical standardisation of separate approaches," Ecological Modelling, Elsevier, vol. 320(C), pages 383-392.
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