Package: mixfishtools 0.5.1

Marc Taylor

mixfishtools: WGMIXFISH tools for reproducibility

Contains plot templates used in WGMIXFISH-ADVICE and Fisheries Overviews.

Authors:Marc Taylor, Mikel Aristegui, Johnathan Ball, Harriet Cole, Paul Dolder

mixfishtools_0.5.1.tar.gz
mixfishtools_0.5.1.zip(r-4.7)mixfishtools_0.5.1.zip(r-4.6)mixfishtools_0.5.1.zip(r-4.5)
mixfishtools_0.5.1.tgz(r-4.6-any)mixfishtools_0.5.1.tgz(r-4.5-any)
mixfishtools_0.5.1.tar.gz(r-4.7-any)mixfishtools_0.5.1.tar.gz(r-4.6-any)
mixfishtools_0.5.1.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
mixfishtools/json (API)

# Install 'mixfishtools' in R:
install.packages('mixfishtools', repos = c('https://ices-tools-prod.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/ices-tools-dev/mixfishtools/issues

Datasets:
  • haddockWts - Short-term forecast individual weights for had.27.46a20
  • NSeffort - Data.frame Contains information on the total effort by year and gear categories
  • NSlandings - Data.frame Contains information on the total landings by year and gear categories
  • refTable - Look-up reference table for stocks and associated attributes
  • stfFltStkSum - Data.frame containing short-term forecast summary of catch-related variables per stock and fleet combination
  • stfFltSum - Data.frame containing short-term forecast summary of catch-related variables per fleet
  • stfMtStkSum - Data.frame containing short-term forecast summary of catch-related variables per stock, fleet, and metier combination
  • stock_props - Data.frame contains information on the stock, metiers and landings proportions
  • wgnsskStocks - FLStocks object with assessment estimated values

On CRAN:

Conda:

4.73 score 3 stars 8 scripts 14 exports 33 dependencies

Last updated from:d3cfef90c1. Checks:7 WARNING, 2 OK. Indexed: no.

TargetResultTimeFilesSyslog
linux-devel-x86_64WARNING236
source / vignettesOK285
linux-release-x86_64WARNING207
macos-release-arm64WARNING115
macos-oldrel-arm64WARNING113
windows-develWARNING178
windows-releaseWARNING152
windows-oldrelWARNING146
wasm-releaseOK122

Exports:gm_meanplot_alluvialplot_catch_changeplot_catchCompplot_catchCompSppplot_catchCompStkplot_catchScenStkplot_effortFltStkplot_FOgearTypeplot_landByMetStockplot_landByStockplot_overUnderFltStkplot_relEffortFltStkplot_stkMetProp

Dependencies:clicpp11dplyrfarvergenericsggalluvialggplot2ggrepelgluegtableisobandlabelinglazyevallifecyclemagrittrpillarpkgconfigpurrrR6RColorBrewerRcpprlangS7scalesstringistringrtibbletidyrtidyselectutf8vctrsviridisLitewithr

Assessment WG guidance on providing FLR stock objects to WGMIXFISH

Rendered fromFLStock2WGMIXFISH.Rmdusingknitr::rmarkdownon Jun 04 2026.

Last update: 2025-04-19
Started: 2025-04-17

Guide to mixfishtools package

Rendered frommixfishtoolsGuide.Rmdusingknitr::rmarkdownon Jun 04 2026.

Last update: 2025-09-29
Started: 2024-06-20

Reproducing the advice: WGMIXFISH quality control procedure

Rendered fromreproduceAdvice.Rmdusingknitr::rmarkdownon Jun 04 2026.

Last update: 2025-04-17
Started: 2025-03-10

Readme and manuals

Help Manual

Help pageTopics
Geometric Meangm_mean
Short-term forecast individual weights for had.27.46a20haddockWts
Data.frame Contains information on the total effort by year and gear categoriesNSeffort
Data.frame Contains information on the total landings by year and gear categoriesNSlandings
Alluvial plotplot_alluvial
Plot fleet landings taken up relative to recent landings / quotaplot_catch_change
Plot landings or catch compositionsplot_catchComp
Plot landings (catch) composition by country and speciesplot_catchCompSpp
Plot landings or catch compositionsplot_catchCompStk
Headline advice plotplot_catchScenStk
Plot fleet effort to uptake stock quotasplot_effortFltStk
Plot total landings or effort by broad gear categoriesplot_FOgearType
Bar chart of landings by stock and metierplot_landByMetStock
Pie chart of landings by stockplot_landByStock
Plot over- and undershoot of stock quotas by fleetplot_overUnderFltStk
Relative fleet effort to uptake stock quotasplot_relEffortFltStk
Plot proportion of stock landings by metierplot_stkMetProp
Look-up reference table for stocks and associated attributesrefTable
Data.frame containing short-term forecast summary of catch-related variables per stock and fleet combinationstfFltStkSum
Data.frame containing short-term forecast summary of catch-related variables per fleetstfFltSum
Data.frame containing short-term forecast summary of catch-related variables per stock, fleet, and metier combinationstfMtStkSum
Data.frame contains information on the stock, metiers and landings proportionsstock_props
FLStocks object with assessment estimated valueswgnsskStocks