Degree of self belonging of species

Description

Define the degree of self belonging of species.

Usage

self.belonging(dis, standardize = TRUE)

Arguments

Details

For the calculation of self-belonging of a set of species the dissimilarities between the species are transformed into similarities and used to define degrees of belonging to fuzzy sets (Pillar et al. 2009; Pillar & Duarte 2010). Every species among all species specifies a fuzzy set in relation to all other species, with a certain degree of belonging. The self-belonging of a given species i expresses its degree of belonging to the root node of the phylogenetic/functional tree, conditioned to the similarities between i and all other internal nodes connecting it to the root.

Value

The self-belonging for each species.

Author(s)

Vanderlei Julio Debastiani <vanderleidebastiani@yahoo.com.br>

References

Pillar, V.D.; Duarte, L.d.S. (2010). A framework for metacommunity analysis of phylogenetic structure. Ecology Letters, 13, 587:596.

Pillar, V.D., Duarte, L.d.S., Sosinski, E.E. & Joner, F. (2009). Discriminating trait-convergence and trait-divergence assembly patterns in ecological community gradients. Journal of Vegetation Science, 20, 334:348.

See Also

belonging

Examples

data(flona)
self.belonging(flona$phylo)

Results

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> library(PCPS)
Loading required package: SYNCSA
Loading required package: vegan
Loading required package: permute
Loading required package: lattice
This is vegan 2.4-0
Loading required package: mice
Loading required package: Rcpp
mice 2.25 2015-11-09
Loading required package: FD
Loading required package: ade4

Attaching package: 'ade4'

The following object is masked from 'package:vegan':

    cca

Loading required package: ape
Loading required package: geometry
Loading required package: magic
Loading required package: abind
> png(filename="/home/ddbj/snapshot/RGM3/R_CC/result/PCPS/self.belonging.Rd_%03d_medium.png", width=480, height=480)
> ### Name: self.belonging
> ### Title: Degree of self belonging of species
> ### Aliases: self.belonging
> ### Keywords: PCPS
> 
> ### ** Examples
> 
> 
> data(flona)
> self.belonging(flona$phylo)
   araucaria_angustifolia       podocarpus_lamberti calyptranthes_grandifolia 
               0.13986014                0.13986014                0.03816794 
          eugenia_handroi     eugenia_subterminalis      eugenia_uruguayensis 
               0.03787879                0.03787879                0.03787879 
    myrceugenia_miersiana    myrceugenia_myrcioides         myrceugenia_ovata 
               0.03773585                0.03773585                0.03773585 
    myrceugenia_oxysepala            myrceugenia_sp         myrcia_guianensis 
               0.03773585                0.03773585                0.03816794 
       myrcia_hartwegiana            myrcia_retorta      myrciaria_delicatula 
               0.03816794                0.03816794                0.03861004 
                  genx_sp       psidium_cattleianum      siphoneugena_reitzii 
               0.03861004                0.03861004                0.03861004 
       leandra_dasytricha         leandra_laevigata         leandra_sublanata 
               0.03947368                0.03947368                0.03947368 
      miconia_cinerascens          miconia_hyemalis        miconia_sellowiana 
               0.03947368                0.03947368                0.03947368 
   daphnopsis_fasciculata      matayba_elaeagnoides     zanthoxylum_rhoifoliu 
               0.04418262                0.04385965                0.04385965 
        casearia_decandra   xylosma_pseudosalzmanii        sapium_glandulosum 
               0.04659832                0.04659832                0.04686036 
        lamanonia_ternata weinmannia_paulliniifolia        inga_lentiscifolia 
               0.04699248                0.04699248                0.04793864 
        prunus_myrtifolia            clethra_uleana       laplacea_acutifolia 
               0.04793864                0.05102041                0.05102041 
      symplocos_tetrandra          myrsine_coriacea       myrsine_lorentziana 
               0.05102041                0.05153164                0.05153164 
         ilex_brevicuspis               ilex_dumosa           ilex_microdonta 
               0.04761905                0.04761905                0.04761905 
      ilex_paraguariensis                   ilex_sp        piptocarpha_notata 
               0.04761905                0.04761905                0.04842615 
    piptocarpha_tomentosa         vernonia_discolor        rudgea_parquioides 
               0.04842615                0.04870130                0.05071851 
        solanum_variabile      cinnamomum_glaziovii cryptocaria_aschersoniana 
               0.05071851                0.06382979                0.06382979 
    nectandra_grandiflora    nectandra_megapotamica          ocotea_corymbosa 
               0.06329114                0.06329114                0.06329114 
                ocotea_sp        mollinedia_elegans         rollinia_rugulosa 
               0.06329114                0.06666667                0.07042253 
      drimys_angustifolia      dicksonia_sellowiana 
               0.07537688                1.00000000 
> 
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>