…El libro rojo de las plantas endémicas del Perú constituye, en este aspecto una herramienta fundamental para determinar las medidas necesarias para la conservación de la flora peruana. - Kember Mejía Carhuanca

The goal of ppendemic is to provide access to The red book of endemic plants of Peru data.

Installation:

You can install:

the most recent officially-released version from CRAN with:

install.packages("ppendemic")

the latest development version from GitHub with:

# install.packages("remotes")
remotes::install_github("PaulESantos/ppendemic")

About the data

Data were published and made available by the Revista Peruana de Biología in volume 13 and number 2 available here, on 2006. Edited by Blanca León et al.

Examples:

pep_check, the basic function of ppendemic:

The function can be executed on a vector with the names of the species to be verified.

spp <-  c("Clethra cuneata", "Miconia setulosa", "Weinmannia fagaroides", "Symplocos quitensis", "Miconia alpina", "Persea ruizii", "Myrsine andina", "Symplocos baehnii", "Polylepis pauta")

pep_check(spp)
#> [1] "not endemic" "not endemic" "not endemic" "not endemic" "endemic"    
#> [6] "not endemic" "not endemic" "endemic"     "not endemic"

Or in a tibble variable:

df <- tibble::tibble(sppe = c("Clethra cuneata", "Miconia setulosa",
                          "Weinmannia fagaroides", "Symplocos quitensis",
                          "Miconia alpina", "Persea ruizii",
                          "Myrsine andina", "Symplocos baehnii",
                          "Polylepis pauta"))

df
#> # A tibble: 9 x 1
#>   sppe                 
#>   <chr>                
#> 1 Clethra cuneata      
#> 2 Miconia setulosa     
#> 3 Weinmannia fagaroides
#> 4 Symplocos quitensis  
#> 5 Miconia alpina       
#> 6 Persea ruizii        
#> 7 Myrsine andina       
#> 8 Symplocos baehnii    
#> 9 Polylepis pauta

df %>% 
  mutate(endemic = pep_check(sppe))
#> # A tibble: 9 x 2
#>   sppe                  endemic    
#>   <chr>                 <chr>      
#> 1 Clethra cuneata       not endemic
#> 2 Miconia setulosa      not endemic
#> 3 Weinmannia fagaroides not endemic
#> 4 Symplocos quitensis   not endemic
#> 5 Miconia alpina        endemic    
#> 6 Persea ruizii         not endemic
#> 7 Myrsine andina        not endemic
#> 8 Symplocos baehnii     endemic    
#> 9 Polylepis pauta       not endemic

You can check the region where the endemic species are registered with pep_regdep function:

pep_regdep("Miconia alpina")
#> # A tibble: 1 x 2
#>   accepted_name  registro_dep                 
#>   <chr>          <chr>                        
#> 1 Miconia alpina Áncash-Apurímac-Cusco-Huánuco

and build a map with pep_regdep_map():

pep_regdep_map("Miconia alpina")

pep_by_reg() give access a list of species by region or regions

pep_by_reg("Cusco")
#> Region: Cusco with 689 species
#> # A tibble: 690 x 2
#>    registro_dep accepted_name              
#>    <chr>        <chr>                      
#>  1 Cusco        Aphelandra cuscoensis      
#>  2 Cusco        Dicliptera rauhii          
#>  3 Cusco        Justicia alpina            
#>  4 Cusco        Odontophyllum cuscoensis   
#>  5 Cusco        Ruellia rauhii             
#>  6 Cusco        Streblacanthus amoenus     
#>  7 Cusco        Bomarea ampayesana         
#>  8 Cusco        Bomarea herrerae           
#>  9 Cusco        Alternanthera albosquarrosa
#> 10 Cusco        Clinanthus imasumacc       
#> # ... with 680 more rows

# or

pep_by_reg(c("Cusco", "Madre de Dios"))
#> Regions: Cusco - Madre de Dios with 743 species
#> # A tibble: 744 x 2
#>    registro_dep accepted_name              
#>    <chr>        <chr>                      
#>  1 Cusco        Aphelandra cuscoensis      
#>  2 Cusco        Dicliptera rauhii          
#>  3 Cusco        Justicia alpina            
#>  4 Cusco        Odontophyllum cuscoensis   
#>  5 Cusco        Ruellia rauhii             
#>  6 Cusco        Streblacanthus amoenus     
#>  7 Cusco        Bomarea ampayesana         
#>  8 Cusco        Bomarea herrerae           
#>  9 Cusco        Alternanthera albosquarrosa
#> 10 Cusco        Clinanthus imasumacc       
#> # ... with 734 more rows

Citation

To cite the ppendemic package, please use:

citation("ppendemic")
#> 
#> To cite ppendemic in publications use:
#> 
#>   Santos-Andrade PE, Vilca-Bustamante LL (2021). ppendemic: The red
#>   book of endemic plants of Peru data. R package version 0.1.3.
#> 
#> A BibTeX entry for LaTeX users is
#> 
#>   @Manual{,
#>     title = {ppendemic: The red book of endemic plants of Peru data},
#>     author = {Paul Efren Santos Andrade and Lucely L. Vilca Bustamante},
#>     year = {2021},
#>     note = {R package version 0.1.3},
#>     url = {https://github.com/PaulESantos/ppendemic},
#>   }

References

Data originally published in:

  • León, B., J. Roque, C. Ulloa Ulloa, N. C. A. Pitman, P. M. Jørgensen & A. Cano Echevarría. 2006 2007. El Libro Rojo de las Plantas Endémicas del Perú. Revista Peruana Biol. 13(núm. 2 especial): 1s–971s.Here