icesSAG

icesSAG provides R functions that access the web services of the ICES Stock Assessment Graphs database.

icesSAG is implemented as an R package and available on CRAN.

Installation

icesSAG can be installed from CRAN using the install.packages command:

install.packages("icesSAG")

Usage

For a summary of the package:

library(icesSAG)
?icesSAG

Examples

To download the summary data for all stocks published so far in 2017 use:

summary_data <- getSAG(stock = NULL, year = 2017)
head(summary_data)

##   Year recruitment high_recruitment low_recruitment low_SSB     SSB
## 1 1983   363882257        500964928       264310512  344716  485730
## 2 1984    98645782        135843627        71633764  156369  212220
## 3 1985   717818846        969399186       531529119  356604  484960
## 4 1986   108025739        149248399        78188848  244355  310240
## 5 1987    67748200         95561249        48030124  851024 1135900
## 6 1988   274136290        372843269       201561116  473496  625020
##   high_SSB   catches  landings discards low_F     F high_F
## 1   684429 378795000 378795000       NA 0.462 0.577  0.692
## 2   288020 498626000 498626000       NA 0.524 0.654  0.784
## 3   659516 437114000 437114000       NA 0.563 0.702  0.841
## 4   393889 382844000 382844000       NA 0.399 0.497  0.595
## 5  1516137 373021000 373021000       NA 0.298 0.372  0.447
## 6   825034 413646000 413646000       NA 0.437 0.543  0.649
##   StockPublishNote Fage fishstock recruitment_age AssessmentYear  units
## 1  Stock published  1-2 san.sa.1r               0           2017 tonnes
## 2  Stock published  1-2 san.sa.1r               0           2017 tonnes
## 3  Stock published  1-2 san.sa.1r               0           2017 tonnes
## 4  Stock published  1-2 san.sa.1r               0           2017 tonnes
## 5  Stock published  1-2 san.sa.1r               0           2017 tonnes
## 6  Stock published  1-2 san.sa.1r               0           2017 tonnes
##   stockSizeDescription stockSizeUnits fishingPressureDescription
## 1                  SSB         tonnes                          F
## 2                  SSB         tonnes                          F
## 3                  SSB         tonnes                          F
## 4                  SSB         tonnes                          F
## 5                  SSB         tonnes                          F
## 6                  SSB         tonnes                          F
##   fishingPressureUnits
## 1             per year
## 2             per year
## 3             per year
## 4             per year
## 5             per year
## 6             per year

References

ICES Stock Assessment Graphs database: http://sg.ices.dk

ICES Stock Assessment Graphs web services: http://sg.ices.dk/webservices.aspx

Development

icesSAG is developed openly on GitHub.

Feel free to open an issue there if you encounter problems or have suggestions for future versions.

The current development version can be installed using:

library(devtools)
install_github("ices-tools-prod/icesSAG")

Dependencies graph (from MRAN)