x.ling {scape} | R Documentation |
Stock assessment data and model fit for ling (Genypterus blacodes) in New Zealand waters, using a Coleraine statistical catch-at-age model.
This is a two-sex model with 30 age classes and 29 length classes, the catch data starting in 1973 and ending in 2000. The model was fitted to five data components: longline abundance index, survey abundance index, survey catch at age, longline catch at length, and trawl catch at length.
x.ling
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 |
CPUE | commercial abundance index and fit |
Survey | survey abundance index and fit |
CAs | survey C@A (catch at age) and fit |
CLc | commercial C@L (catch at length) and fit |
Estimated parameters: R0, Rinit, Sleft[trawl], Sfemale[t], Smale[t], Sright[t], Sleft[longline], Sfemale[l], Smale[l], Sright[l], Sleft[survey], Sfemale[s], Smale[s], Sright[s], q[l], q[s], and 29 recruitment deviates.
The list was imported from the file ‘scape/example/ling.res’
using importCol
.
The functions ll
(package gdata) and head
are
recommended for browsing model results, e.g. ll(x.ling);
ll(x.ling$N); head(x.ling$N)
.
Annala, J.H., K.J. Sullivan, C.J. O'Brien, and N.W.M. Smith. (eds.) 2001. Report from the Fishery Assessment Plenary: Stock assessments and yield estimates. Wellington: NIWA. Available from NIWA library, Wellington.
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. 2001. SeaFIC assessment of Chatham Rise ling (LIN 3 and 4). Middle Depths Working Group Doc. 11. Report for the New Zealand Ministry of Fisheries. Available from the author.
importCol
, x.cod
, x.oreo
,
x.sbw
.
scape-package
gives an overview of the package.
plotB(x.ling) plotCA(x.ling, "s") plotCL(x.ling, "c", series="1") plotCL(x.ling, "c", series="2") plotIndex(x.ling, "c") plotIndex(x.ling, "s") plotN(x.ling) plotSel(x.ling)