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'))

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

Pkgdown site:https://fawda123.github.io

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 649 downloads 31 exports 77 dependencies

Last updated 4 months agofrom:1adf5711f3. Checks:OK: 6 ERROR: 1. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Dec 13 2024
R-4.5-win	OK	Dec 13 2024
R-4.5-linux	OK	Dec 13 2024
R-4.4-win	OK	Dec 13 2024
R-4.4-mac	OK	Dec 13 2024
R-4.3-win	ERROR	Dec 13 2024
R-4.3-mac	OK	Dec 13 2024

Exports:aggremetab aggreswmp all_params all_params_dtrng calckl cens_id comb decomp decomp_cj ecometab import_local map_reserve metab_day overplot oxySol param_names parser plot_metab plot_quants plot_summary plot_wind qaqc qaqcchk rem_reps setstep single_param site_codes site_codes_ind smoother swmpr time_vec

Dependencies:askpass bit bit64 cli clipr cluster colorspace cpp11 crayon curl data.table deldir dplyr fansi farver generics ggplot2 glue gridExtra gsw gtable hexbin hms httr interp isoband jpeg jsonlite labeling lattice latticeExtra lifecycle lubridate magrittr mapproj maps MASS Matrix mgcv mime munsell nlme oce openair openssl pillar pkgconfig plyr png prettyunits progress purrr R6 RColorBrewer Rcpp RcppEigen readr reshape2 rlang scales stringi stringr suncalc sys tibble tictoc tidyr tidyselect timechange tzdb utf8 vctrs viridisLite vroom withr XML zoo

Overview

Rendered fromOverview.Rmdusingknitr::rmarkdownon Dec 13 2024.

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

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Aggregate metabolism data	aggremetab aggremetab.swmpr
Aggregate swmpr data	aggreswmp aggreswmp.swmpr
Import current station records from the CDMO	all_params
Get CDMO records within a date range	all_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 coefficient	calckl
Flag observations above/below detection limits	cens_id cens_id.swmpr
Combine swmpr data	comb comb.default comb.swmpr
Simple trend decomposition	decomp decomp.default decomp.swmpr
Simple trend decomposition of monthly swmpr data	decomp_cj decomp_cj.default decomp_cj.swmpr
Decompose a time series	decompTs
Ecosystem metabolism	ecometab ecometab.default ecometab.swmpr
Get colors for plots	gradcols
Plot swmpr using a histogram	hist.swmpr
Import local CDMO data	import_local
Map a reserve	map_reserve
Identify metabolic days in a time series	metab_day metab_day.default
Linearly interpolate gaps	na.approx.swmpr
Plot multiple SWMP time series on the same y-axis	overplot overplot.default overplot.swmpr
Dissolved oxygen at saturation	oxySol
Get parameters of a given type	param_names
Parse web results for swmpr	parser
Plot ecosystem metabolism for a swmpr object	plot_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 data	plot_summary plot_summary.swmpr
Create a wind rose	plot_wind plot_wind.swmpr
Plot swmpr data	lines.swmpr plot.swmpr
QAQC filtering for SWMP data	qaqc qaqc.swmpr
Summary of QAQC flags in SWMP data	qaqcchk qaqcchk.swmpr
Remove replicates in nutrient data	rem_reps rem_reps.swmpr
Format a swmpr time vector	setstep setstep.default setstep.swmpr
Get CDMO records for a single parameter	single_param
Obtain metadata for all stations	site_codes
Obtain metadata for a single reserve	site_codes_ind
Smooth swmpr data	smoother smoother.default smoother.swmpr
Locations of NERRS sites	stat_locs
Subset a swmpr object	subset.swmpr
Create a swmpr object	swmpr
Format SWMP datetimestamp	time_vec