Package: portalr 0.4.2

Glenda M. Yenni

portalr: Create Useful Summaries of the Portal Data

Download and generate summaries for the rodent, plant, ant, and weather data from the Portal Project. Portal is a long-term (and ongoing) experimental monitoring site in the Chihuahuan desert. The raw data files can be found at <https://github.com/weecology/portaldata>.

Authors:Glenda M. Yenni [aut, cre], Hao Ye [aut], Erica M. Christensen [aut], Juniper L. Simonis [aut], Ellen K. Bledsoe [aut], Renata M. Diaz [aut], Shawn D. Taylor [aut], Ethan P, White [aut], S.K. Morgan Ernest [aut], Weecology [cph]

portalr_0.4.2.tar.gz
portalr_0.4.2.zip(r-4.5)portalr_0.4.2.zip(r-4.4)portalr_0.4.2.zip(r-4.3)
portalr_0.4.2.tgz(r-4.4-any)portalr_0.4.2.tgz(r-4.3-any)
portalr_0.4.2.tar.gz(r-4.5-noble)portalr_0.4.2.tar.gz(r-4.4-noble)
portalr_0.4.2.tgz(r-4.4-emscripten)portalr_0.4.2.tgz(r-4.3-emscripten)
portalr.pdf |portalr.html✨
portalr/json (API)
NEWS

# Install 'portalr' in R:
install.packages('portalr', repos = c('https://weecology.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/weecology/portalr/issues

On CRAN:

community-ecologyecologysmall-mammal-trapping

44 exports 11 stars 2.25 score 61 dependencies 57 scripts 1.6k downloads

Last updated 1 months agofrom:7e15d88d01. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKSep 07 2024
R-4.5-winOKSep 07 2024
R-4.5-linuxOKSep 07 2024
R-4.4-winOKSep 07 2024
R-4.4-macOKSep 07 2024
R-4.3-winOKSep 07 2024
R-4.3-macOKSep 07 2024

Exports:%>%abundanceadd_seasonsbait_presence_absencebiomasscheck_default_data_pathcheck_for_newer_dataclean_plant_dataclean_rodent_datacolony_presence_absencedownload_observationsenergyfcast_ndvifill_missing_ndvifind_incomplete_censusesforecasting_speciesformat_codeformat_todoformat_valueget_dataset_citationget_default_data_pathget_future_newmoonsload_ant_dataload_datafileload_plant_dataload_rodent_dataload_trapping_datana_conformerndviphenocamplant_abundanceratesreturn_if_nullrodent_speciesshrub_coversummarise_individual_rodentssummarise_plant_datasummarise_rodent_datasummarize_individual_rodentssummarize_plant_datasummarize_rodent_datause_default_data_pathweatheryearly

Dependencies:askpassclicliprcolorspacecpp11curldplyrfansifarverforecastfracdiffgenericsggplot2gluegtablehttrisobandjsonlitelabelinglatticelifecyclelmtestlubridatelunarmagrittrMASSMatrixmgcvmimemunsellnlmennetopensslpillarpkgconfigpurrrquadprogquantmodR6RColorBrewerRcppRcppArmadillorlangscalesstringistringrsystibbletidyrtidyselecttimechangetimeDatetseriesTTRurcautf8vctrsviridisLitewithrxtszoo

Examples of How Portal Researchers Are Using the Package

Ellen K. Bledsoe

Rendered fromportal_researcher_examples.Rmdusingknitr::rmarkdownon Sep 07 2024.

Last update: 2021-02-11
Started: 2018-07-09

Portal Rodent Abundance Demo

Hao Ye

Rendered fromrodent-abundance-demo.Rmdusingknitr::rmarkdownon Sep 07 2024.

Last update: 2023-04-19
Started: 2017-11-15

Readme and manuals

Help Manual

Help pageTopics
Add Seasonsadd_seasons yearly
Ant Bait Presence Absencebait_presence_absence
Manage the default path for downloading Portal Data intocheck_default_data_path get_default_data_path use_default_data_path
Check for latest version of data filescheck_for_newer_data
Do basic cleaning of Portal plant dataclean_plant_data
Do basic cleaning of Portal rodent dataclean_rodent_data
Ant Colony Presence Absencecolony_presence_absence
Download the PortalData repodownload_observations
Forecast ndvi using a seasonal auto ARIMAfcast_ndvi
Fill in historic ndvi data to the complete timeseries being fitfill_missing_ndvi
Period code for incomplete censusesfind_incomplete_censuses
Format content as codeformat_code
Format content as an action to be performed by the userformat_todo
Format content as a variable valueformat_value
Return Citation for Portal Dataget_dataset_citation
Get future newmoon dates and numbersget_future_newmoons
read in a raw datafile from the downloaded data or the GitHub repoload_datafile
Read in the Portal data filesload_ant_data load_plant_data load_rodent_data load_trapping_data
Conform NA entries to "NA" entriesna_conformer
NDVI by calendar month or lunar monthndvi
Phenocam data products by day, calendar month, or lunar monthphenocam
If a Value is NULL, Trigger the Parent Function's Returnreturn_if_null
Rodent species abbreviationsforecasting_species rodent_species
Generate percent cover from Portal plant transect datashrub_cover
Return cleaned Portal rodent individual datasummarise_individual_rodents summarize_individual_rodents
Generate summaries of Portal plant dataplant_abundance summarise_plant_data summarize_plant_data
Generate summaries of Portal rodent dataabundance biomass energy rates summarise_rodent_data summarize_rodent_data
Weather by day, calendar month, or lunar monthweather