x.cod {scape} | R Documentation |
Stock assessment data and model fit for cod (Gadus morhua) in Icelandic waters, using a Coleraine statistical catch-at-age model.
This is a single-sex model with 10 age classes, the catch data starting in 1971 and ending in 2003. The model was fitted to three data components: survey abundance index, commercial catch at age, and survey catch at age.
x.cod
List of class scape
containing:
N | predicted numbers at age |
B | predicted biomass, recruitment, and observed landings (year things) |
Sel | predicted selectivity and observed maturity (age things) |
Dev | predicted recruitment deviates from the stock-recruitment curve |
Survey | survey abundance index and fit |
CAc | commercial C@A (catch at age) and fit |
CAs | survey C@A and fit |
A maturity vector of zeros and ones was used to predict the biomass of age 4 and older, the quantity of main interest for the management of this stock.
Estimated parameters: R0, Rinit, uinit, Sleft[commercial], Sfull[c], Sleft[survey], Sfull[s], q, and 41 recruitment deviates.
The list was imported from the file ‘scape/example/cod.res’ using
importCol
.
The functions ll
(package gdata) and head
are
recommended for browsing model results, e.g. ll(x.cod);
ll(x.cod$N); head(x.cod$N)
.
Marine Research Institute. 2003. State of marine stocks in Icelandic waters 2002/2003. Available at http://www.hafro.is/Astand/2003/astand-allt-03.pdf.
Hilborn, R., M. Maunder, A. Parma, B. Ernst, J. Payne, and P. Starr. 2003. Coleraine: A generalized age-structured stock assessment model. User's manual version 2.0. University of Washington Report SAFS-UW-0116. Available at http://fish.washington.edu/research/coleraine/coleraine.pdf.
Magnusson, A. 2003. Coleraine assessment of the Icelandic cod stock. Report for the Icelandic Marine Research Institute. Available from the author.
importCol
, x.ling
, x.oreo
,
x.sbw
.
scape-package
gives an overview of the package.
plotB(x.cod) plotCA(x.cod, "c") plotCA(x.cod, "s") plotIndex(x.cod, "s") plotN(x.cod) plotSel(x.cod)