Package: NWCTrends 1.30

Elizabeth Holmes - NOAA Federal

NWCTrends: Standardized Trend Metrics for Salmonid Populations

This is runs the standardized trends metrics used in the 2016 and 2020 5-year NWFSC Viability Reports for listed PNW salmonids. To run, type library(NWCTrends) and then NWCTrends_report().

Authors:Holmes Elizabeth [aut, cre]

NWCTrends_1.30.tar.gz
NWCTrends_1.30.zip(r-4.5)NWCTrends_1.30.zip(r-4.4)NWCTrends_1.30.zip(r-4.3)
NWCTrends_1.30.tgz(r-4.4-any)NWCTrends_1.30.tgz(r-4.3-any)
NWCTrends_1.30.tar.gz(r-4.5-noble)NWCTrends_1.30.tar.gz(r-4.4-noble)
NWCTrends_1.30.tgz(r-4.4-emscripten)NWCTrends_1.30.tgz(r-4.3-emscripten)
NWCTrends.pdf |NWCTrends.html✨
NWCTrends/json (API)
NEWS

# Install 'NWCTrends' in R:

install.packages('NWCTrends', repos = c('https://noaa-fisheries-integrated-toolbox.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/nwfsc-math-bio/nwctrends/issues

On CRAN:

marss noaa protected-species salmon time-series

1 exports 1 stars 3.18 score 52 dependencies

Last updated 1 years agofrom:31145abc08. Checks:OK: 1 WARNING: 6. Indexed: no.

Target	Result	Date
Doc / Vignettes	OK	Oct 02 2024
R-4.5-win	WARNING	Oct 02 2024
R-4.5-linux	WARNING	Oct 02 2024
R-4.4-win	WARNING	Oct 02 2024
R-4.4-mac	WARNING	Oct 02 2024
R-4.3-win	WARNING	Oct 02 2024
R-4.3-mac	WARNING	Oct 02 2024

Exports:NWCTrends_report

Dependencies:base64enc bslib cachem cli colorspace cpp11 digest evaluate farver fastmap fontawesome fs gdata generics glue gtools highr htmltools jquerylib jsonlite kableExtra KFAS knitr labeling lattice lifecycle magrittr MARSS memoise mime munsell mvtnorm nlme R6 rappdirs RColorBrewer rlang rmarkdown rstudioapi sass scales stringi stringr svglite systemfonts tinytex vctrs viridisLite xfun xml2 xtable yaml

Example code

Rendered fromdemo-code.Rmdusingknitr::rmarkdownon Oct 02 2024.

Last update: 2021-07-30
Started: 2021-07-06

demo-data

Rendered fromdemo-data.Rmdusingknitr::rmarkdownon Oct 02 2024.

Last update: 2021-07-30
Started: 2021-07-06

Methods

Rendered fromMethods.Rmdusingknitr::rmarkdownon Oct 02 2024.

Last update: 2021-08-19
Started: 2021-08-19

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Choose ESU	choose.esu
Lighter clean up population names	clean.mpg
Clean up population names	clean.pops
Read in the inputfile	data_setup
Figure of the raw and smoothed fracwild estimates.	fracwild_multipanel
Make average and geomean fraction wild tables	fracwild_table
Create the geomean tables	geomean_table
NWFSC PNW Salmonid Viability Report Table and Figures	NWCTrends_report
NWCTrends options and plot variables	nwctrends.options
Productivity plot	productivity_plot
Main figure of estimated trends (wild and total spawners)	Status_trendfigure_multipanel
data frame of estimated trends (wild and total spawners)	Status_trendfigure_multipanel_csv
Create the trend tables	trend_15_table
Fit a MARSS model and store in a list	trend_fits