popdynMICE | R Documentation |
Calls popdynOneMICE iteratively to reconstruct a time series given MICE model inputs
popdynMICE(
qsx,
qfracx,
np,
nf,
nyears,
nareas,
maxage,
Nx,
VFx,
FretAx,
Effind,
movx,
Spat_targ,
M_ageArrayx,
Mat_agex,
Fec_agex,
Asizex,
WatAgex,
Len_agex,
Karrayx,
Linfarrayx,
t0arrayx,
Marrayx,
R0x,
R0ax,
SSBpRx,
hsx,
aRx,
bRx,
ax,
bx,
Perrx,
SRrelx,
Rel,
SexPars,
x,
plusgroup,
maxF,
SSB0x,
B0x,
MPA,
SRRfun,
SRRpars,
spawn_time_frac = rep(0, np)
)
qsx |
Total catchability |
qfracx |
Vector |
np |
Integer, the number of stocks |
nf |
Integer, number of fleets |
nyears |
Integer, number of historical years (unfished til today) |
nareas |
Integer, the number of spatial areas |
maxage |
Integer, maximum modeled age |
Nx |
Array |
VFx |
Array |
FretAx |
Array |
Effind |
Array |
movx |
Array |
Spat_targ |
Matrix |
M_ageArrayx |
Array |
Mat_agex |
Array |
Fec_agex |
Array |
Asizex |
Array |
WatAgex |
Array of weight-at-age |
Len_agex |
Array of length-at-age |
Karrayx |
Array of von B growth parameter K |
Linfarrayx |
Array of von B asymptotic length parameter Linf |
t0arrayx |
Array ofvon B theoretical age at zero length (t0) |
Marrayx |
Array of mature natural mortality rate |
R0x |
Vector |
R0ax |
Matrix |
SSBpRx |
Matrix |
hsx |
Vector |
aRx |
Vector |
bRx |
Vector |
ax |
Vector |
bx |
Vector |
Perrx |
Matrix |
SRrelx |
Integer vector |
Rel |
A list of inter-stock relationships see slot Rel of MOM object class |
SexPars |
A list of sex-specific relationships (SSBfrom, stock_age) |
x |
Integer the simulation number |
plusgroup |
Numeric vector. Use plus-group (1) or not (0) |
maxF |
maximum F |
SSB0x |
SSB0 for this simulation |
B0x |
B0 for this simulation |
MPA |
An array of spatial closures by year |
SRRfun |
A list of custom stock-recruit functions. List of length |
SRRpars |
A list of custom stock-recruit parameters for simulation |
spawn_time_frac |
vector of relative spawn timing. Length nstock |
T.Carruthers
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