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Package: ss3diags 2.2.1

Megumi Oshima

ss3diags: Stock Synthesis Model Diagnostics for Intergated Stock Assessments

Compilation of diagnostic functions for Stock Synthesis models, which developed for the manuscript "Using Model Diagnostics in Integrated Stock Assessments".

Authors:Henning Winker [aut], Felipe Carvalho [aut], Massimiliano Cardinale [aut], Laurence Kell [aut], Megumi Oshima [aut, cre], Eric Fletcher [aut]

ss3diags_2.2.1.tar.gz
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ss3diags_2.2.1.tgz(r-4.5-any)ss3diags_2.2.1.tgz(r-4.4-any)ss3diags_2.2.1.tgz(r-4.3-any)
ss3diags_2.2.1.tar.gz(r-4.5-noble)ss3diags_2.2.1.tar.gz(r-4.4-noble)
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ss3diags.pdf |ss3diags.html✨
ss3diags/json (API)
NEWS

# Install 'ss3diags' in R:

install.packages('ss3diags', repos = c('https://ices-tools-prod.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/pifscstockassessments/ss3diags/issues

On CRAN:

stock-synthesis

4.34 score 2 stars 110 scripts 20 exports 92 dependencies

Last updated 7 days agofrom:62993bf49b. Checks:1 OK, 7 WARNING. Indexed: no.

Target	Result	Latest binary
Doc / Vignettes	OK	Feb 12 2025
R-4.5-win	WARNING	Feb 12 2025
R-4.5-mac	WARNING	Feb 12 2025
R-4.5-linux	WARNING	Feb 12 2025
R-4.4-win	WARNING	Feb 12 2025
R-4.4-mac	WARNING	Feb 12 2025
R-4.3-win	WARNING	Feb 12 2025
R-4.3-mac	WARNING	Feb 12 2025

Exports:SScompsTA1.8 SSdeltaMVLN SSdeltaMVLN_old SSdiagsMCMC SSdiagsMCMC_ancient SShcbias SSmase SSplotEnsemble SSplotHCxval SSplotJABBAres SSplotKobe SSplotModelcomp SSplotRetro SSplotRunstest SSreadMCMC SSretroComps SSrmse ssruns_sig3 SSrunstest SSsettingsBratioF

Dependencies:askpass base64enc bitops bslib cachem caTools cli coda codetools colorspace corpcor cpp11 curl digest dplyr evaluate fansi farver fastmap fontawesome forcats fs furrr future generics ggplot2 gh gitcreds globals glue gplots gridExtra gtable gtools highr htmltools httr2 ini isoband jquerylib jsonlite kableExtra KernSmooth knitr labeling lattice lifecycle listenv magrittr MASS Matrix memoise mgcv mime munsell mvtnorm nlme openssl parallelly pillar pkgconfig plyr purrr r4ss R6 randtests rappdirs RColorBrewer Rcpp reshape2 rlang rmarkdown rstudioapi sass scales stringi stringr svglite sys systemfonts tibble tidyr tidyselect tinytex utf8 vctrs viridis viridisLite withr xfun xml2 yaml

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Francis Weighting for compositional data	SScompsTA1.8
Joint Distributions for Stock Status Ratios	SSdeltaMVLN
Joint Distributions for Stock Status Ratios	SSdeltaMVLN_old
MCMC Joint Distributions	SSdiagsMCMC
MCMC Joint Distributions	SSdiagsMCMC_ancient
Mohn's Rho and Forecast Bias	SShcbias
Mean Absolute Scaled Error	SSmase
Model ensemble plots	SSplotEnsemble
Hindcasting Cross-Validations of Multiple Models	SSplotHCxval
Residual plot	SSplotJABBAres
KOBE phase plot	SSplotKobe
Compare Multiple SS Model Estimates	SSplotModelcomp
Retrospective-Forecast with One-Step Ahead Hindcasting	SSplotRetro
Residual Diagnostics	SSplotRunstest
Read SS MCMC	SSreadMCMC
Retrieve Composition Data from Multiple SS Models	SSretroComps
Function for calculating RMSE used for 'SSplotJABBAres()'	SSrmse
Runs Test for Residuals	ssruns_sig3
Residual Diagnostics Plot	SSrunstest
Get Stock Status Settings	SSsettingsBratioF