Package: wqtrends 1.5.2.9000

Marcus Beck

wqtrends: Assess Water Quality Trends with Generalized Additive Models

Assess Water Quality Trends for Long-Term Monitoring Data in Estuaries using Generalized Additive Models following Wood (2017) <doi:10.1201/9781315370279> and Error Propagation with Mixed-Effects Meta-Analysis following Sera et al. (2019) <doi:10.1002/sim.8362>. Methods are available for model fitting, assessment of fit, annual and seasonal trend tests, and visualization of results.

Authors:Marcus Beck [aut, cre], Perry de Valpine [aut], Rebecca Murphy [aut], Ian Wren [aut], Ariella Chelsky [aut], Melissa Foley [aut], David Senn [aut]

wqtrends_1.5.2.9000.tar.gz
wqtrends_1.5.2.9000.zip(r-4.7)wqtrends_1.5.2.9000.zip(r-4.6)wqtrends_1.5.2.9000.zip(r-4.5)
wqtrends_1.5.2.9000.tgz(r-4.6-any)wqtrends_1.5.2.9000.tgz(r-4.5-any)
wqtrends_1.5.2.9000.tar.gz(r-4.7-any)wqtrends_1.5.2.9000.tar.gz(r-4.6-any)
wqtrends_1.5.2.9000.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
wqtrends/json (API)

# Install 'wqtrends' in R:

install.packages('wqtrends', repos = c('https://tbep-tech.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/tbep-tech/wqtrends/issues

Datasets:

rawdat - Raw data from San Francisco Estuary

On CRAN:

reporting san-francisco-bay time-series-analysis water-quality

6.18 score 13 stars 33 scripts 500 downloads 26 exports 71 dependencies

Last updated from:08f588b453. Checks:9 OK. Indexed: yes.

Target	Result	Time
linux-devel-x86_64	OK	215
source / vignettes	OK	253
linux-release-x86_64	OK	178
macos-release-arm64	OK	121
macos-oldrel-arm64	OK	134
windows-devel	OK	161
windows-release	OK	157
windows-oldrel	OK	149
wasm-release	OK	121

Exports:anlz_avgseason anlz_backtrans anlz_fit anlz_gam anlz_metseason anlz_mixmeta anlz_perchg anlz_prd anlz_prdday anlz_prdmatrix anlz_pvalformat anlz_smooth anlz_sumstats anlz_sumtrndseason anlz_trans anlz_trndseason show_metseason show_mettrndseason show_perchg show_prd3d show_prddoy show_prdseason show_prdseries show_sumtrndseason show_sumtrndseason2 show_trndseason

Dependencies:askpass base64enc bslib cachem cli cpp11 crosstalk curl data.table digest dplyr evaluate farver fastmap fontawesome fs generics ggplot2 glue gtable highr htmltools htmlwidgets httr isoband jquerylib jsonlite knitr labeling later lattice lazyeval lifecycle lubridate magrittr Matrix memoise mgcv mime mixmeta nlme openssl otel pillar pkgconfig plotly promises purrr R6 rappdirs RColorBrewer Rcpp rlang rmarkdown S7 sass scales stringi stringr sys tibble tidyr tidyselect timechange tinytex utf8 vctrs viridisLite withr xfun yaml

Getting started

Basic usage | Trend testing | Evaluating changes between time periods | Evaluating seasonal changes over time | References

Rendered fromwqtrends.Rmdusingknitr::rmarkdown

Last update: 2024-09-03
Started: 2024-02-15

Help page	Topics
Extract period (seasonal) averages from fitted GAM	anlz_avgseason
Back-transform response variable	anlz_backtrans
Return summary statistics for GAM fits	anlz_fit
Fit a generalized additive model to a water quality time series	anlz_gam
Extract period (seasonal) metrics from fitted GAM	anlz_metseason
Fit a mixed meta-analysis regression model of trends	anlz_mixmeta
Estimate percent change trends from GAM results for selected time periods	anlz_perchg
Get predicted data from fitted GAMs across period of observation	anlz_prd
Get predicted data from fitted GAMs across period of observation, every day	anlz_prdday
Get prediction matrix for a fitted GAM	anlz_prdmatrix
Format p-values for show functions	anlz_pvalformat
Return summary statistics for smoothers of GAMs	anlz_smooth
Retrieve summary statistics for seasonal metrics and trend results	anlz_sumstats
Estimate seasonal rates of change based on average estimates for multiple window widths	anlz_sumtrndseason
Transform response variable	anlz_trans
Estimate rates of change based on seasonal metrics	anlz_trndseason
Raw data from San Francisco Estuary (South Bay)	rawdat
Plot period (seasonal) averages from fitted GAM	show_metseason
Plot seasonal metrics and rates of change	show_mettrndseason
Plot percent change trends from GAM results for selected time periods	show_perchg
Plot a 3-d surface of predictions	show_prd3d
Plot predictions for GAMs against day of year	show_prddoy
Plot predictions for GAMs over time, by season	show_prdseason
Plot predictions for GAMs over time series	show_prdseries
Plot seasonal rates of change based on average estimates for multiple window widths	show_sumtrndseason
Plot seasonal rates of change in quarters based on average estimates for multiple window widths	show_sumtrndseason2
Plot rates of change based on seasonal metrics	show_trndseason

Package: wqtrends 1.5.2.9000

wqtrends: Assess Water Quality Trends with Generalized Additive Models

Citation

Development and contributors

Readme and manuals

Help Manual

Usage by other packages (reverse dependencies)