Doing a community ecology analysis using npe_community_matrix and | Setup | Wrangle the data | vegan analysis | NMDS | getting summary info by site using npe_summary | Species richness by biogeographical origin | Relative cover by biogeographical origin | Alpha biogeographical diversity | Make a multipanel figure | Family cover through time using npe_longform
Package: neonPlantEcology 1.6.2
neonPlantEcology: Process NEON Plant Data for Ecological Analysis
Downloading and organizing plant presence and percent cover data from the National Ecological Observatory Network <https://www.neonscience.org>.
Authors:
neonPlantEcology_1.6.2.tar.gz
neonPlantEcology_1.6.2.zip(r-4.7)neonPlantEcology_1.6.2.zip(r-4.6)neonPlantEcology_1.6.2.zip(r-4.5)
neonPlantEcology_1.6.2.tgz(r-4.6-any)neonPlantEcology_1.6.2.tgz(r-4.5-any)
neonPlantEcology_1.6.2.tar.gz(r-4.7-any)neonPlantEcology_1.6.2.tar.gz(r-4.6-any)
neonPlantEcology_1.6.2.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
neonPlantEcology/json (API)
| # Install 'neonPlantEcology' in R: |
| install.packages('neonPlantEcology', repos = c('https://admahood.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/admahood/neonplantecology/issues
Datasets:
- D14 - Plant Presence and Percent Cover Data for Domain 14
- plot_centroids - Plot centroids for the entire NEON network
- sites - National Ecological Observatory Network Core and Relocatable Terrestrial Sites
Last updated from:1b233505e7. Checks:9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | OK | 188 | ||
| source / vignettes | OK | 226 | ||
| linux-release-x86_64 | OK | 196 | ||
| macos-release-arm64 | OK | 203 | ||
| macos-oldrel-arm64 | OK | 205 | ||
| windows-devel | OK | 2386 | ||
| windows-release | OK | 123 | ||
| windows-oldrel | OK | 2851 | ||
| wasm-release | OK | 153 |
Exports:npe_change_native_statusnpe_cm_metadatanpe_community_matrixnpe_downloadnpe_eventID_fixernpe_groundcovernpe_heightsnpe_longformnpe_plot_centroidsnpe_site_idsnpe_summarynpe_update_subplots
Dependencies:abindarrowaskpassassertthatbackportsbitbit64bootbroomcarcarDataclassclassIntcliclustercolorspacecorrplotcowplotcpp11curldata.tableDBIDerivdigestdoBydownloaderdplyrdtplyre1071farverforecastFormulafracdiffgenericsggplot2ggpubrggrepelggsciggsignifgluegridExtragtablehttrisobandjosejsonliteKernSmoothlabelinglatticelifecyclelme4lmtestlubridatemagrittrMASSMatrixMatrixModelsmgcvmicrobenchmarkmimeminqamodelrneonUtilitiesnlmenloptrnnetnumDerivopensslpbapplypbkrtestpermutepillarpkgconfigpolynomproxypurrrquantregR.methodsS3R.ooR.utilsR6rbibutilsRColorBrewerRcppRcppArmadilloRcppEigenRdpackreformulasrlangrstatixs2S7scalessfSparseMstringistringrsurvivalsystibbletidyrtidyselecttimechangetimeDateunitsurcautf8vctrsveganviridisLitewithrwkzoo
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Plant Presence and Percent Cover Data for Domain 14 | D14 |
| Change the native status code for a particular taxon at a particular site | npe_change_native_status |
| Get plot information from a community matrix | npe_cm_metadata |
| Create a species abundance or occurrence matrix | npe_community_matrix |
| Data downloader | npe_download |
| fix errors in the eventID column | npe_eventID_fixer |
| Get ground cover and other variables | npe_groundcover |
| Get heights | npe_heights |
| Convert raw NEON diversity object to longform plant cover data frame | npe_longform |
| Download and join spatial information to a neonPlantEcology output data frame | npe_plot_centroids |
| Get site ids | npe_site_ids |
| Get plant biodiversity information for NEON plots | npe_summary |
| Change subplot names | npe_update_subplots |
| Plot centroids for the entire NEON network | plot_centroids |
| Polygons of National Ecological Observatory Network Core and Relocatable Terrestrial Sites | site_polygons |
| National Ecological Observatory Network Core and Relocatable Terrestrial Sites | sites |
