nwfsc-math-bio
. See also theR-universe documentation.Package: NWCTrends 1.30
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:
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://nmfs-opensci.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/nwfsc-math-bio/nwctrends/issues
marssnoaaprotected-speciessalmontime-series
Last updated 1 years agofrom:31145abc08. Checks:OK: 1 WARNING: 6. Indexed: no.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Nov 24 2024 |
R-4.5-win | WARNING | Nov 24 2024 |
R-4.5-linux | WARNING | Nov 24 2024 |
R-4.4-win | WARNING | Nov 24 2024 |
R-4.4-mac | WARNING | Nov 24 2024 |
R-4.3-win | WARNING | Nov 24 2024 |
R-4.3-mac | WARNING | Nov 24 2024 |
Exports:NWCTrends_report
Dependencies:base64encbslibcachemclicolorspacecpp11digestevaluatefarverfastmapfontawesomefsgdatagenericsgluegtoolshighrhtmltoolsjquerylibjsonlitekableExtraKFASknitrlabelinglatticelifecyclemagrittrMARSSmemoisemimemunsellmvtnormnlmeR6rappdirsRColorBrewerrlangrmarkdownrstudioapisassscalesstringistringrsvglitesystemfontstinytexvctrsviridisLitexfunxml2xtableyaml
Example code
Rendered fromdemo-code.Rmd
usingknitr::rmarkdown
on Nov 24 2024.Last update: 2021-07-30
Started: 2021-07-06
demo-data
Rendered fromdemo-data.Rmd
usingknitr::rmarkdown
on Nov 24 2024.Last update: 2021-07-30
Started: 2021-07-06
Methods
Rendered fromMethods.Rmd
usingknitr::rmarkdown
on Nov 24 2024.Last update: 2021-08-19
Started: 2021-08-19
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 |