Package: SWMPr 2.5.1

SWMPr: Retrieving, Organizing, and Analyzing Estuary Monitoring Data

Tools for retrieving, organizing, and analyzing environmental data from the System Wide Monitoring Program of the National Estuarine Research Reserve System <https://cdmo.baruch.sc.edu/>. These tools address common challenges associated with continuous time series data for environmental decision making.

Authors:Marcus W. Beck [aut, cre], Kimberly Cressman [ctb]

SWMPr_2.5.1.tar.gz
SWMPr_2.5.1.zip(r-4.5)SWMPr_2.5.1.zip(r-4.4)SWMPr_2.5.1.zip(r-4.3)
SWMPr_2.5.1.tgz(r-4.4-any)SWMPr_2.5.1.tgz(r-4.3-any)
SWMPr_2.5.1.tar.gz(r-4.5-noble)SWMPr_2.5.1.tar.gz(r-4.4-noble)
SWMPr_2.5.1.tgz(r-4.4-emscripten)SWMPr_2.5.1.tgz(r-4.3-emscripten)
SWMPr.pdf |SWMPr.html
SWMPr/json (API)
NEWS

# Install 'SWMPr' in R:
install.packages('SWMPr', repos = c('https://fawda123.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/fawda123/swmpr/issues

Datasets:
  • apacpnut - Example nutrient data for Apalachicola Bay Cat Point station.
  • apacpwq - Example water quality data for Apalachicola Bay Cat Point station.
  • apadbwq - Example water quality data for Apalachicola Bay Dry Bar station.
  • apaebmet - Example weather data for Apalachicola Bay East Bay station.
  • stat_locs - Locations of NERRS sites

On CRAN:

6.76 score 13 stars 1 packages 146 scripts 688 downloads 31 exports 77 dependencies

Last updated 3 months agofrom:1adf5711f3. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKOct 14 2024
R-4.5-winOKOct 14 2024
R-4.5-linuxOKOct 14 2024
R-4.4-winOKOct 14 2024
R-4.4-macOKOct 14 2024
R-4.3-winOKOct 14 2024
R-4.3-macOKOct 14 2024

Exports:aggremetabaggreswmpall_paramsall_params_dtrngcalcklcens_idcombdecompdecomp_cjecometabimport_localmap_reservemetab_dayoverplotoxySolparam_namesparserplot_metabplot_quantsplot_summaryplot_windqaqcqaqcchkrem_repssetstepsingle_paramsite_codessite_codes_indsmootherswmprtime_vec

Dependencies:askpassbitbit64clicliprclustercolorspacecpp11crayoncurldata.tabledeldirdplyrfansifarvergenericsggplot2gluegridExtragswgtablehexbinhmshttrinterpisobandjpegjsonlitelabelinglatticelatticeExtralifecyclelubridatemagrittrmapprojmapsMASSMatrixmgcvmimemunsellnlmeoceopenairopensslpillarpkgconfigplyrpngprettyunitsprogresspurrrR6RColorBrewerRcppRcppEigenreadrreshape2rlangscalesstringistringrsuncalcsystibbletictoctidyrtidyselecttimechangetzdbutf8vctrsviridisLitevroomwithrXMLzoo

Overview

Rendered fromOverview.Rmdusingknitr::rmarkdownon Oct 14 2024.

Last update: 2023-04-02
Started: 2020-12-18

Readme and manuals

Help Manual

Help pageTopics
Aggregate metabolism dataaggremetab aggremetab.swmpr
Aggregate swmpr dataaggreswmp aggreswmp.swmpr
Import current station records from the CDMOall_params
Get CDMO records within a date rangeall_params_dtrng
Example nutrient data for Apalachicola Bay Cat Point station.apacpnut
Example water quality data for Apalachicola Bay Cat Point station.apacpwq
Example water quality data for Apalachicola Bay Dry Bar station.apadbwq
Example weather data for Apalachicola Bay East Bay station.apaebmet
Calculate oxygen mass transfer coefficientcalckl
Flag observations above/below detection limitscens_id cens_id.swmpr
Combine swmpr datacomb comb.default comb.swmpr
Simple trend decompositiondecomp decomp.default decomp.swmpr
Simple trend decomposition of monthly swmpr datadecomp_cj decomp_cj.default decomp_cj.swmpr
Decompose a time seriesdecompTs
Ecosystem metabolismecometab ecometab.default ecometab.swmpr
Get colors for plotsgradcols
Plot swmpr using a histogramhist.swmpr
Import local CDMO dataimport_local
Map a reservemap_reserve
Identify metabolic days in a time seriesmetab_day metab_day.default
Linearly interpolate gapsna.approx.swmpr
Plot multiple SWMP time series on the same y-axisoverplot overplot.default overplot.swmpr
Dissolved oxygen at saturationoxySol
Get parameters of a given typeparam_names
Parse web results for swmprparser
Plot ecosystem metabolism for a swmpr objectplot_metab plot_metab.swmpr
Create a plot of data for a single year overlaid on historical data.plot_quants plot_quants.swmpr
Plot graphical summaries of SWMP dataplot_summary plot_summary.swmpr
Create a wind roseplot_wind plot_wind.swmpr
Plot swmpr datalines.swmpr plot.swmpr
QAQC filtering for SWMP dataqaqc qaqc.swmpr
Summary of QAQC flags in SWMP dataqaqcchk qaqcchk.swmpr
Remove replicates in nutrient datarem_reps rem_reps.swmpr
Format a swmpr time vectorsetstep setstep.default setstep.swmpr
Get CDMO records for a single parametersingle_param
Obtain metadata for all stationssite_codes
Obtain metadata for a single reservesite_codes_ind
Smooth swmpr datasmoother smoother.default smoother.swmpr
Locations of NERRS sitesstat_locs
Subset a swmpr objectsubset.swmpr
Create a swmpr objectswmpr
Format SWMP datetimestamptime_vec