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A collection of functions to summarize the Portal Data

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weecology/portalr

R-CMD-checkLicenseCodecov test coverage

CRAN downloads

DOIDOINSF-1929730

Overview

Theportalr package provides collection of basic functions tosummarize the Portal project data on rodents, plants, ants, and weatherat our long-term field site in the Chihuahuan Desert. The data begin in1977 and are continuously updated today. There are functions tosummarize rodent abundance, biomass, or energy and by site, plot, ortreatment type. There are functions to summarize the weather datacollected from our automated weather stations and plant data that iscollected each summer and fall.

Installation

You can install portalr from CRAN with:

install.packages("portalr")

OR from github with:

# install.packages("remotes")remotes::install_github("weecology/portalr")

Examples

  1. Load all data tables from thePortalData GitHubrepo:
data_tables<- load_rodent_data("repo")
  1. Download and generate summaries of rodent abundance and biomass:
download_observations(".")rodent_data<- abundance(".")# default grouping is by sampling periodrodent_biomass_by_plot<- biomass(".",level="plot",type="granivores",shape="flat",time="date")
  1. Retrieve weather data:
weatherdata<- weather("Monthly",".")

For more detailed info, checkout the vignettes associated with thepackage:

browseVignettes("portalr")

More Information

The data repo contains useful details for issues with data collection,and background on why we handle them the way we do. Of course, it alsocontains the raw data, if you would like to create more complex datasummaries than what is provided here.

Find a list of previous publications using the Portal data at ourwebsite.

Follow our blog to get the latest news on what is happening with ourproject and at the site.

Citation

To citeportalr, please refer to either:

  • JOSS publication:

    Erica M. Christensen, Glenda M. Yenni, Hao Ye, Juniper L. Simonis,Ellen K. Bledsoe, Renata M. Diaz, Shawn D. Taylor, Ethan P. White,and S. K. Morgan Ernest. (2019). portalr: an R package for summarizingand using the Portal Project Data. Journal of Open Source Software,4(33), 1098,https://doi.org/10.21105/joss.01098

  • or use the most recent release onZenodo.

Dataset Citation

To cite the Portal dataset, use:

get_dataset_citation()#>#> To cite the Portal Data in publications, use:#>#>   S. K. Morgan Ernest, Glenda M. Yenni, Ginger Allington, Ellen K.#>   Bledsoe, Erica M. Christensen, Renata M. Diaz, Keith Geluso, Jacob R.#>   Goheen, Qinfeng Guo, Edward Heske, Douglas Kelt, Joan M. Meiners, Jim#>   Munger, Carla Restrepo, Douglas A. Samson, Michele R. Schutzenhofer,#>   Marian Skupski, Sarah R. Supp, Kate Thibault, Shawn Taylor, Ethan#>   White, Diane W. Davidson, James H. Brown, and Thomas J. Valone.#>   (2018). The Portal Project: a long-term study of a Chihuahuan desert#>   ecosystem. bioRxiv, https://doi.org/10.1101/332783#>#> A BibTeX entry for LaTeX users is#>#>   @Article{ernest2018portal,#>     title = {The Portal Project: a long-term study of a Chihuahuan desert ecosystem},#>     author = {S. K. Morgan Ernest and Glenda M. Yenni and Ginger Allington and Ellen K. Bledsoe and Erica M. Christensen and Renata M. Diaz and Keith Geluso and Jacob R. Goheen and Qinfeng Guo and Edward Heske and Douglas Kelt and Joan M. Meiners and Jim Munger and Carla Restrepo and Douglas A. Samson and Michele R. Schutzenhofer and Marian Skupski and Sarah R. Supp and Kate Thibault and Shawn Taylor and Ethan White and Diane W. Davidson and James H. Brown and Thomas J. Valone},#>     year = {2018},#>     journal = {bioRxiv},#>     doi = {10.1101/332783},#>   }

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A collection of functions to summarize the Portal Data

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