robscott3/FLR4MFCL
R Functions for Taming MULTIFAN-CL

Package index
Search the robscott3/FLR4MFCL package
Vignettes
Functions
1232
Source code
59
Man pages
117
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robscott3/FLR4MFCL: R Functions for Taming MULTIFAN-CL
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API

API for robscott3/FLR4MFCL
R Functions for Taming MULTIFAN-CL

Global functions
.onAttach Source code
ABBMSY Man page
ABBMSY,MFCLRep-method Man page
ABBMSY<- Man page
ABBMSY<-,MFCLRep,numeric-method Man page
ABBMSY_ts Man page
ABBMSY_ts,MFCLRep-method Man page
ABBMSY_ts<- Man page
ABBMSY_ts<-,MFCLRep,FLQuant-method Man page
ALK Man page
ALK,MFCLALK-method Man page
ALK<- Man page
ALK<-,MFCLALK,data.frame-method Man page
AggregateF Man page
AggregateF,MFCLRep-method Man page
AggregateF<- Man page
AggregateF<-,MFCLRep,FLQuant-method Man page
BMSY Man page
BMSY,MFCLRep-method Man page
BMSY<- Man page
BMSY<-,MFCLRep,numeric-method Man page
CalcMSpline Source code
CalcSelSpline Source code
ESS Man page
ESS,MFCLALK-method Man page
ESS<- Man page
ESS<-,MFCLALK,numeric-method Man page
Eq_calcs Man page
Eq_calcs,MFCLEquilibrium-method Man page
Eq_calcs<- Man page
Eq_calcs<-,MFCLEquilibrium,data.frame-method Man page
FFMSY_ts Man page
FFMSY_ts,MFCLRep-method Man page
FFMSY_ts<- Man page
FFMSY_ts<-,MFCLRep,FLQuant-method Man page
FMSY Man page
FMSY,MFCLRep-method Man page
FMSY<- Man page
FMSY<-,MFCLRep,numeric-method Man page
Fmult Man page
Fmult,MFCLRep-method Man page
Fmult<- Man page
Fmult<-,MFCLRep,numeric-method Man page
MFCLALK Man page Source code
MFCLALK-class Man page
MFCLBase Man page Source code
MFCLBiol Man page Source code
MFCLCatch Man page Source code
MFCLEMControl Man page Source code
MFCLEMControl-class Man page
MFCLEquilibrium Man page Source code
MFCLEquilibrium-class Man page
MFCLFlags Man page Source code
MFCLFrq Man page Source code
MFCLFrq-class Man page
MFCLFrq2 Man page Source code
MFCLFrq2-class Man page
MFCLFrqStats Man page Source code
MFCLFrqStats-class Man page
MFCLIni Man page Source code
MFCLIni-class Man page
MFCLIniBits Man page Source code
MFCLLenFit Man page Source code
MFCLLenFit-class Man page
MFCLLenFreq Man page Source code
MFCLLenFreq-class Man page
MFCLLenFreq2 Man page Source code
MFCLLenFreq2-class Man page
MFCLLikelihood Man page Source code
MFCLLikelihood-class Man page
MFCLMSEControl Man page Source code
MFCLMSEControl-class Man page
MFCLPar Man page Source code
MFCLPar-class Man page
MFCLParBits Man page Source code
MFCLPseudo Man page Source code
MFCLPseudo-class Man page
MFCLPseudoControl Man page Source code
MFCLRec Man page Source code
MFCLRegion Man page Source code
MFCLRep Man page Source code
MFCLRep-class Man page
MFCLSel Man page Source code
MFCLTag Man page Source code
MFCLTag-class Man page
MFCLTagProj Man page Source code
MFCLTagProj-class Man page
MFCLTagRep Man page Source code
MFCLWgtFit Man page Source code
MFCLprojControl Man page Source code
MFCLprojControl-class Man page
MSY Man page
MSY,MFCLRep-method Man page
MSY<- Man page
MSY<-,MFCLRep,numeric-method Man page
SB Man page
SB,MFCLRep,missing,missing-method Man page
SB,MFCLRep,missing,numeric-method Man page
SB,MFCLRep,numeric,missing-method Man page
SB,MFCLRep,numeric,numeric-method Man page
SB,list,missing,missing-method Man page
SB,list,missing,numeric-method Man page
SB,list,numeric,missing-method Man page
SB,list,numeric,numeric-method Man page
SBF0 Man page
SBF0,MFCLRep,missing,missing-method Man page
SBF0,MFCLRep,missing,numeric-method Man page
SBF0,MFCLRep,numeric,missing-method Man page
SBF0,MFCLRep,numeric,numeric-method Man page
SBF0,list,missing,missing-method Man page
SBF0,list,missing,numeric-method Man page
SBF0,list,numeric,missing-method Man page
SBF0,list,numeric,numeric-method Man page
SBF0recent Man page
SBF0recent,MFCLRep-method Man page
SBF0recent,list-method Man page
SBSBF0 Man page
SBSBF0,MFCLRep,missing,missing,missing,missing-method Man page
SBSBF0,MFCLRep,numeric,numeric,numeric,numeric-method Man page
SBSBF0,list,missing,missing,missing,missing-method Man page
SBSBF0,list,numeric,numeric,numeric,numeric-method Man page
SBSBF0latest Man page
SBSBF0latest,MFCLRep-method Man page
SBSBF0latest,list-method Man page
SBSBF0recent Man page
SBSBF0recent,MFCLRep-method Man page
SBSBF0recent,list-method Man page
SBlatest Man page
SBlatest,MFCLRep-method Man page
SBlatest,list-method Man page
SBmethods Man page
SBrecent Man page
SBrecent,MFCLRep-method Man page
SBrecent,list-method Man page
SPR0 Man page
SPR0,MFCLBiol-method Man page
TBBMSY Man page
TBBMSY,MFCLRep-method Man page
TBBMSY<- Man page
TBBMSY<-,MFCLRep,numeric-method Man page
YPR Man page
YPR,MFCLRep,MFCLPar-method Man page
aal Man page
aal,MFCLBiol-method Man page
ac Source code
accessors Man page
adultBiomass Man page
adultBiomass,MFCLRep-method Man page
adultBiomass<- Man page
adultBiomass<-,MFCLRep,FLQuant-method Man page
adultBiomass_nofish Man page
adultBiomass_nofish,MFCLRep-method Man page
adultBiomass_nofish<- Man page
adultBiomass_nofish<-,MFCLRep,FLQuant-method Man page
age_length Man page
age_length,MFCLLikelihood-method Man page
age_length<- Man page
age_length<-,MFCLLikelihood,numeric-method Man page
age_nage Man page
age_nage,MFCLLenFreq-method Man page
age_nage<- Man page
age_nage<-,MFCLLenFreq,numeric-method Man page
age_pars Man page
age_pars,MFCLIniBits-method Man page
age_pars<- Man page
age_pars<-,MFCLIniBits,matrix-method Man page
ageflag Man page
an Source code
annual_rel_rec_coffs Man page
annual_rel_rec_coffs,MFCLRec-method Man page
annual_rel_rec_coffs<- Man page
annual_rel_rec_coffs<-,MFCLRec,matrix-method Man page
as.MFCLIni Man page
ats Man page Source code
av_fish_mort_age Man page
av_fish_mort_age,MFCLParBits-method Man page
av_fish_mort_age<- Man page
av_fish_mort_age<-,MFCLParBits,numeric-method Man page
av_fish_mort_inst Man page
av_fish_mort_inst,MFCLParBits-method Man page
av_fish_mort_inst<- Man page
av_fish_mort_inst<-,MFCLParBits,numeric-method Man page
av_fish_mort_year Man page
av_fish_mort_year,MFCLParBits-method Man page
av_fish_mort_year<- Man page
av_fish_mort_year<-,MFCLParBits,numeric-method Man page
av_q_coffs Man page
av_q_coffs,MFCLSel-method Man page
av_q_coffs<- Man page
av_q_coffs<-,MFCLSel,FLQuant-method Man page
availability_coffs Man page
availability_coffs,MFCLSel-method Man page
availability_coffs<- Man page
availability_coffs<-,MFCLSel,FLQuant-method Man page
availableMFCLversions Man page Source code
avyrs Man page
avyrs,MFCLprojControl-method Man page
avyrs<- Man page
avyrs<-,MFCLprojControl,character-method Man page
bh_steep_contrib Man page
bh_steep_contrib,MFCLLikelihood-method Man page
bh_steep_contrib<- Man page
bh_steep_contrib<-,MFCLLikelihood,numeric-method Man page
caeff Man page
caeff,MFCLprojControl-method Man page
caeff<- Man page
caeff<-,MFCLprojControl,numeric-method Man page
catchWfromcatchN Man page Source code
catch_dev_coffs Man page
catch_dev_coffs,MFCLSel-method Man page
catch_dev_coffs<- Man page
catch_dev_coffs<-,MFCLSel,list-method Man page
catch_dev_coffs_flag Man page
catch_dev_coffs_flag,MFCLSel-method Man page
catch_dev_coffs_flag<- Man page
catch_dev_coffs_flag<-,MFCLSel,numeric-method Man page
catch_fish Man page
catch_fish,MFCLLikelihood-method Man page
catch_fish<- Man page
catch_fish<-,MFCLLikelihood,list-method Man page
catch_obs Man page
catch_obs,MFCLRep-method Man page
catch_obs<- Man page
catch_obs<-,MFCLRep,FLQuant-method Man page
catch_pred Man page
catch_pred,MFCLRep-method Man page
catch_pred<- Man page
catch_pred<-,MFCLRep,FLQuant-method Man page
catch_sd Man page
catch_sd,MFCLPseudoControl-method Man page
catch_sd<- Man page
catch_sd<-,MFCLPseudoControl,numeric-method Man page
catcheff Man page
catcheff,MFCLPseudo-method Man page
catcheff<- Man page
catcheff<-,MFCLPseudo,data.frame-method Man page
cateffpen Man page
cateffpen,MFCLLenFreq2-method Man page
cateffpen<- Man page
cateffpen<-,MFCLLenFreq2,data.frame-method Man page
check.mfcl.cfg Man page Source code
checkMissingRealisations Source code
checkUnitDimnames Man page Source code
common_len_bias_coffs Man page
common_len_bias_coffs,MFCLBiol-method Man page
common_len_bias_coffs<- Man page
common_len_bias_coffs<-,MFCLBiol,numeric-method Man page
common_len_bias_pars Man page
common_len_bias_pars,MFCLBiol-method Man page
common_len_bias_pars<- Man page
common_len_bias_pars<-,MFCLBiol,numeric-method Man page
condor_submit_set_iters Source code
control_flags Man page
control_flags,MFCLRegion-method Man page
control_flags<- Man page
control_flags<-,MFCLRegion,matrix-method Man page
controls Man page
controls,MFCLprojControl-method Man page
controls<- Man page
controls<-,MFCLprojControl,data.frame-method Man page
corFilter Man page Source code
corLabel Man page Source code
cordf Man page
cormat Man page
cpue_obs Man page
cpue_obs,MFCLRep-method Man page
cpue_obs<- Man page
cpue_obs<-,MFCLRep,FLQuant-method Man page
cpue_pred Man page
cpue_pred,MFCLRep-method Man page
cpue_pred<- Man page
cpue_pred<-,MFCLRep,FLQuant-method Man page
csf Source code
data_flags Man page
data_flags,MFCLFrqStats-method Man page
data_flags<- Man page
data_flags<-,MFCLFrqStats,matrix-method Man page
diffFlags Man page Source code
diffFlagsStepwise Man page Source code
diffIniStepwise Man page Source code
diff_coffs Man page
diff_coffs,MFCLRegion-method Man page
diff_coffs<- Man page
diff_coffs<-,MFCLRegion,matrix-method Man page
diff_coffs_age Man page
diff_coffs_age,MFCLRegion-method Man page
diff_coffs_age<- Man page
diff_coffs_age<-,MFCLRegion,array-method Man page
diff_coffs_age_period Man page
diff_coffs_age_period,MFCLRegion-method Man page
diff_coffs_age_period<- Man page
diff_coffs_age_period<-,MFCLRegion,array-method Man page
diff_coffs_age_priors Man page
diff_coffs_age_priors,MFCLRegion-method Man page
diff_coffs_age_priors<- Man page
diff_coffs_age_priors<-,MFCLRegion,array-method Man page
diff_coffs_age_ssn Man page
diff_coffs_age_ssn,MFCLRegion-method Man page
diff_coffs_age_ssn<- Man page
diff_coffs_age_ssn<-,MFCLRegion,array-method Man page
diff_coffs_mat Man page
diff_coffs_mat,MFCLRegion-method Man page
diff_coffs_mat<- Man page
diff_coffs_mat<-,MFCLRegion,matrix-method Man page
diff_coffs_nl Man page
diff_coffs_nl,MFCLRegion-method Man page
diff_coffs_nl<- Man page
diff_coffs_nl<-,MFCLRegion,array-method Man page
diff_coffs_nl_priors Man page
diff_coffs_nl_priors,MFCLRegion-method Man page
diff_coffs_nl_priors<- Man page
diff_coffs_nl_priors<-,MFCLRegion,array-method Man page
diff_coffs_priors Man page
diff_coffs_priors,MFCLRegion-method Man page
diff_coffs_priors<- Man page
diff_coffs_priors<-,MFCLRegion,array-method Man page
dimensions Man page
dimensions,MFCLBase-method Man page
dimensions,MFCLBiol-method Man page
dimensions,MFCLLikelihood-method Man page
dimensions,MFCLPar-method Man page
dimensions,MFCLRep-method Man page
dimensions<- Man page
dimensions<-,MFCLBase,numeric-method Man page
dimensions<-,MFCLBiol,numeric-method Man page
dimensions<-,MFCLLikelihood,numeric-method Man page
dimensions<-,MFCLPar,numeric-method Man page
dimensions<-,MFCLRep,numeric-method Man page
doitall Man page
doitall,MFCLEMControl-method Man page
doitall<- Man page
doitall<-,MFCLEMControl,function-method Man page
dummy_simulated_numbers_at_age Source code
effort_creep Man page
effort_creep,MFCLMSEControl-method Man page
effort_creep<- Man page
effort_creep<-,MFCLMSEControl,numeric-method Man page
effort_creep_fish Man page
effort_creep_fish,MFCLMSEControl-method Man page
effort_creep_fish<- Man page
effort_creep_fish<-,MFCLMSEControl,numeric-method Man page
effort_dev_coffs Man page
effort_dev_coffs,MFCLPar,MFCLFrq-method Man page
effort_dev_coffs,MFCLSel,missing-method Man page
effort_dev_coffs<- Man page
effort_dev_coffs<-,MFCLSel,list-method Man page
effort_dev_penalty Man page
effort_dev_penalty,MFCLLikelihood-method Man page
effort_dev_penalty<- Man page
effort_dev_penalty<-,MFCLLikelihood,numeric-method Man page
effort_sd Man page
effort_sd,MFCLPseudoControl-method Man page
effort_sd<- Man page
effort_sd<-,MFCLPseudoControl,numeric-method Man page
eq_biomass Man page
eq_biomass,MFCLRep-method Man page
eq_biomass<- Man page
eq_biomass<-,MFCLRep,FLQuant-method Man page
eq_rec Man page
eq_rec,MFCLRep-method Man page
eq_rec<- Man page
eq_rec<-,MFCLRep,FLQuant-method Man page
eq_rec_obs Man page
eq_rec_obs,MFCLRep-method Man page
eq_rec_obs<- Man page
eq_rec_obs<-,MFCLRep,FLQuant-method Man page
eq_ssb Man page
eq_ssb,MFCLRep-method Man page
eq_ssb<- Man page
eq_ssb<-,MFCLRep,FLQuant-method Man page
eq_ssb_obs Man page
eq_ssb_obs,MFCLRep-method Man page
eq_ssb_obs<- Man page
eq_ssb_obs<-,MFCLRep,FLQuant-method Man page
eq_yield Man page
eq_yield,MFCLRep-method Man page
eq_yield<- Man page
eq_yield<-,MFCLRep,FLQuant-method Man page
ess Man page
ess,MFCLprojControl-method Man page
ess<- Man page
ess<-,MFCLprojControl,data.frame-method Man page
fillfreq Source code
finalPar Man page Source code
finalRep Man page Source code
firstYear Man page Source code
first_year Man page
first_year,MFCLParBits-method Man page
first_year<- Man page
first_year<-,MFCLParBits,numeric-method Man page
fish_params Man page
fish_params,MFCLSel-method Man page
fish_params<- Man page
fish_params<-,MFCLSel,matrix-method Man page
fishery_catch Man page
fishery_catch,MFCLCatch-method Man page
fishery_catch<- Man page
fishery_catch<-,MFCLCatch,FLQuant-method Man page
fishery_realizations Man page
fishery_realizations,MFCLRep-method Man page
fishery_realizations<- Man page
fishery_realizations<-,MFCLRep,FLQuant-method Man page
fishery_sel Man page
fishery_sel,MFCLSel-method Man page
fishery_sel<- Man page
fishery_sel<-,MFCLSel,FLQuant-method Man page
fishery_sel_age_comp Man page
fishery_sel_age_comp,MFCLSel-method Man page
fishery_sel_age_comp<- Man page
fishery_sel_age_comp<-,MFCLSel,FLQuant-method Man page
fishflag Man page
fishflag,MFCLFlags-method Man page
flagDiff Man page Source code
flagExtract Source code
flagMeaning Man page Source code
flagSort Man page Source code
flagSummary Man page Source code
flags Man page
flags,MFCLFlags-method Man page
flags<- Man page
flags<-,MFCLFlags,data.frame-method Man page
flagval Man page
fm Man page
fm,MFCLRep-method Man page
fm<- Man page
fm<-,MFCLRep,FLQuant-method Man page
fm_aggregated Man page
fm_aggregated,MFCLRep-method Man page
fm_aggregated<- Man page
fm_aggregated<-,MFCLRep,FLQuant-method Man page
fm_level_devs Man page
fm_level_devs,MFCLParBits-method Man page
fm_level_devs<- Man page
fm_level_devs<-,MFCLParBits,character-method Man page
fm_level_regression_pars Man page
fm_level_regression_pars,MFCLParBits-method Man page
fm_level_regression_pars<- Man page
fm_level_regression_pars<-,MFCLParBits,matrix-method Man page
fnames Man page
fprojyr Man page
fprojyr,MFCLprojControl-method Man page
fprojyr<- Man page
fprojyr<-,MFCLprojControl,numeric-method Man page
freq Man page
freq,MFCLLenFreq-method Man page
freq,MFCLLenFreq2-method Man page
freq<- Man page
freq<-,MFCLLenFreq,data.frame-method Man page
freq<-,MFCLLenFreq2,data.frame-method Man page
frq_age_len Man page
frq_age_len,MFCLFrqStats-method Man page
frq_age_len<- Man page
frq_age_len<-,MFCLFrqStats,logical-method Man page
frq_version Man page
frq_version,MFCLFrqStats-method Man page
frq_version<- Man page
frq_version<-,MFCLFrqStats,numeric-method Man page
generate Man page
generate,MFCLFrq,MFCLPseudo,MFCLTag-method Man page
generate,MFCLFrq,MFCLprojControl,ANY-method Man page
generate,MFCLIni,MFCLMSEControl,MFCLTag-method Man page
generate,MFCLPar,MFCLFrq,ANY-method Man page
generate,MFCLPar,MFCLPar,MFCLFrq-method Man page
generate,MFCLPar,MFCLPar,MFCLTagProj-method Man page
generate,MFCLTag,MFCLTag,missing-method Man page
generate.ESS Source code
generic_diffusion Man page
generic_diffusion,MFCLFrqStats-method Man page
generic_diffusion<- Man page
generic_diffusion<-,MFCLFrqStats,logical-method Man page
getMFCLversion Man page Source code
gradients Man page Source code
growth Man page
growth,MFCLBiol-method Man page
growth<- Man page
growth<-,MFCLBiol,array-method Man page
growth_curve_devs Man page
growth_curve_devs,MFCLBiol-method Man page
growth_curve_devs<- Man page
growth_curve_devs<-,MFCLBiol,FLQuant-method Man page
growth_devs_age Man page
growth_devs_age,MFCLBiol-method Man page
growth_devs_age<- Man page
growth_devs_age<-,MFCLBiol,FLQuant-method Man page
growth_devs_cohort Man page
growth_devs_cohort,MFCLBiol-method Man page
growth_devs_cohort<- Man page
growth_devs_cohort<-,MFCLBiol,FLCohort-method Man page
growth_var_pars Man page
growth_var_pars,MFCLBiol-method Man page
growth_var_pars<- Man page
growth_var_pars<-,MFCLBiol,array-method Man page
hcr Man page
hcr,MFCLMSEControl-method Man page
hcr<- Man page
hcr<-,MFCLMSEControl,character-method Man page
hcr_asymptotic Man page Source code
hcr_asymptotic_constrained Man page Source code
hcr_asymptotic_hillary_step Man page Source code
hcr_asymptotic_hillary_step_constrained Man page Source code
hcr_constant Man page Source code
hcr_constrained Man page Source code
hcr_hillary_step Man page Source code
hcr_hillary_step_constrained Man page Source code
hcr_params Man page
hcr_params,MFCLMSEControl-method Man page
hcr_params<- Man page
hcr_params<-,MFCLMSEControl,numeric-method Man page
hcr_threshold Man page Source code
hcr_threshold_constrained Man page Source code
ini_q_coffs Man page
ini_q_coffs,MFCLSel-method Man page
ini_q_coffs<- Man page
ini_q_coffs<-,MFCLSel,FLQuant-method Man page
ini_version Man page
ini_version,MFCLIniBits-method Man page
ini_version<- Man page
ini_version<-,MFCLIniBits,numeric-method Man page
itn Man page
itn,MFCLMSEControl-method Man page
itn<- Man page
kludged_eq_coffs Man page
kludged_eq_coffs,MFCLParBits-method Man page
kludged_eq_coffs<- Man page
kludged_eq_coffs<-,MFCLParBits,array-method Man page
kludged_eq_level_coffs Man page
kludged_eq_level_coffs,MFCLParBits-method Man page
kludged_eq_level_coffs<- Man page
kludged_eq_level_coffs<-,MFCLParBits,numeric-method Man page
l_frq Man page
l_frq,MFCLPseudo-method Man page
l_frq<- Man page
l_frq<-,MFCLPseudo,data.frame-method Man page
laa Man page
laa,MFCLBiol-method Man page
laa,MFCLLenFit-method Man page
laa<- Man page
laa<-,MFCLLenFit,FLQuant-method Man page
labels Man page Source code
lagrangian Man page
lagrangian,MFCLParBits-method Man page
lagrangian<- Man page
lagrangian<-,MFCLParBits,character-method Man page
len_bias_pars Man page
len_bias_pars,MFCLBiol-method Man page
len_bias_pars<- Man page
len_bias_pars<-,MFCLBiol,numeric-method Man page
lenagefits Man page
lenagefits,MFCLLenFit-method Man page
lenagefits<- Man page
lenagefits<-,MFCLLenFit,data.frame-method Man page
lenfits Man page
lenfits,MFCLLenFit-method Man page
lenfits<- Man page
lenfits<-,MFCLLenFit,data.frame-method Man page
length_fish Man page
length_fish,MFCLLikelihood-method Man page
length_fish<- Man page
length_fish<-,MFCLLikelihood,list-method Man page
lf_range Man page
lf_range,MFCLLenFreq-method Man page
lf_range<- Man page
lf_range<-,MFCLLenFreq,numeric-method Man page
lnfrq Man page
lnfrq,MFCLLenFreq2-method Man page
lnfrq<- Man page
lnfrq<-,MFCLLenFreq2,data.frame-method Man page
log_m Man page
log_m,MFCLBiol-method Man page
log_m<- Man page
log_m<-,MFCLBiol,FLQuant-method Man page
logistic_normal_params Man page
logistic_normal_params,MFCLParBits-method Man page
logistic_normal_params<- Man page
logistic_normal_params<-,MFCLParBits,character-method Man page
lw_params Man page
lw_params,MFCLIni-method Man page
lw_params<- Man page
lw_params<-,MFCLIniBits,numeric-method Man page
m,MFCLBiol-method Man page
m<-,MFCLBiol,numeric-method Man page
m_at_age Man page
m_at_age,MFCLRep-method Man page
m_at_age<- Man page
m_at_age<-,MFCLRep,FLQuant-method Man page
m_devs_age Man page
m_devs_age,MFCLBiol-method Man page
m_devs_age<- Man page
m_devs_age<-,MFCLBiol,FLQuant-method Man page
mat,MFCLBiol-method Man page
mat2MFCLCor Man page Source code
mat<-,MFCLBiol,FLQuant-method Man page
mat_at_length Man page
mat_at_length,MFCLBiol-method Man page
mat_at_length<- Man page
mat_at_length<-,MFCLBiol,numeric-method Man page
max_grad Man page
max_grad,MFCLParBits-method Man page
max_grad<- Man page
max_grad<-,MFCLParBits,numeric-method Man page
mean_laa Man page
mean_laa,MFCLRep-method Man page
mean_laa<- Man page
mean_laa<-,MFCLRep,FLQuant-method Man page
mean_waa Man page
mean_waa,MFCLRep-method Man page
mean_waa<- Man page
mean_waa<-,MFCLRep,FLQuant-method Man page
mfcl Man page
mfcl,MFCLFrq,MFCLIni-method Man page
mfcl,MFCLFrq,MFCLPar-method Man page
mfcl-plots Man page
mn_len_pen Man page
mn_len_pen,MFCLParBits-method Man page
mn_len_pen<- Man page
mn_len_pen<-,MFCLParBits,numeric-method Man page
mohns_rho Man page
mohns_rho,list-method Man page
move_map Man page
move_map,MFCLRegion-method Man page
move_map<- Man page
move_map<-,MFCLRegion,numeric-method Man page
move_matrix Man page
move_matrix,MFCLFrqStats-method Man page
move_matrix<- Man page
move_matrix<-,MFCLFrqStats,matrix-method Man page
move_weeks Man page
move_weeks,MFCLFrqStats-method Man page
move_weeks<- Man page
move_weeks<-,MFCLFrqStats,numeric-method Man page
n_fisheries Man page
n_fisheries,MFCLFrqStats-method Man page
n_fisheries,MFCLPar-method Man page
n_fisheries<- Man page
n_fisheries<-,MFCLFrqStats,numeric-method Man page
n_mean_constraints Man page
n_mean_constraints,MFCLBiol-method Man page
n_mean_constraints<- Man page
n_mean_constraints<-,MFCLBiol,numeric-method Man page
n_move_yr Man page
n_move_yr,MFCLFrqStats-method Man page
n_move_yr<- Man page
n_move_yr<-,MFCLFrqStats,numeric-method Man page
n_pars Man page
n_pars,MFCLParBits-method Man page
n_pars<- Man page
n_pars<-,MFCLParBits,numeric-method Man page
n_recs_yr Man page
n_recs_yr,MFCLFrqStats-method Man page
n_recs_yr<- Man page
n_recs_yr<-,MFCLFrqStats,numeric-method Man page
n_regions Man page
n_regions,MFCLFrqStats-method Man page
n_regions<- Man page
n_regions<-,MFCLFrqStats,numeric-method Man page
n_tag_groups Man page
n_tag_groups,MFCLFrqStats-method Man page
n_tag_groups<- Man page
n_tag_groups<-,MFCLFrqStats,numeric-method Man page
new_orth_coffs Man page
new_orth_coffs,MFCLRec-method Man page
new_orth_coffs<- Man page
new_orth_coffs<-,MFCLRec,numeric-method Man page
nsims Man page
nsims,MFCLprojControl-method Man page
nsims<- Man page
nsims<-,MFCLprojControl,numeric-method Man page
nyears Man page
nyears,MFCLprojControl-method Man page
nyears<- Man page
nyears<-,MFCLprojControl,numeric-method Man page
obj_fun Man page
obj_fun,MFCLParBits-method Man page
obj_fun<- Man page
obj_fun<-,MFCLParBits,numeric-method Man page
orth_coffs Man page
orth_coffs,MFCLRec-method Man page
orth_coffs<- Man page
orth_coffs<-,MFCLRec,matrix-method Man page
parestflag Man page
plot,MFCLLenFreq,ANY-method Man page
popN Man page
popN,MFCLRep-method Man page
popN<- Man page
popN<-,MFCLRep,FLQuant-method Man page
q0_miss Man page
q0_miss,MFCLSel-method Man page
q0_miss<- Man page
q0_miss<-,MFCLSel,FLQuant-method Man page
q_dev_coffs Man page
q_dev_coffs,MFCLSel-method Man page
q_dev_coffs<- Man page
q_dev_coffs<-,MFCLSel,list-method Man page
q_dev_pen_fish Man page
q_dev_pen_fish,MFCLLikelihood-method Man page
q_dev_pen_fish<- Man page
q_dev_pen_fish<-,MFCLLikelihood,numeric-method Man page
q_dev_pen_fish_grp Man page
q_dev_pen_fish_grp,MFCLLikelihood-method Man page
q_dev_pen_fish_grp<- Man page
q_dev_pen_fish_grp<-,MFCLLikelihood,numeric-method Man page
q_effdev Man page
q_effdev,MFCLRep-method Man page
q_effdev<- Man page
q_effdev<-,MFCLRep,FLQuant-method Man page
q_fishery Man page
q_fishery,MFCLRep-method Man page
q_fishery<- Man page
q_fishery<-,MFCLRep,FLQuant-method Man page
qts Man page Source code
random_seeds Man page
random_seeds,MFCLPseudoControl-method Man page
random_seeds<- Man page
random_seeds<-,MFCLPseudoControl,numeric-method Man page
range,MFCLALK-method Man page
range,MFCLBase-method Man page
range,MFCLBiol-method Man page
range,MFCLCatch-method Man page
range,MFCLFrq-method Man page
range,MFCLFrqStats-method Man page
range,MFCLIni-method Man page
range,MFCLLenFit-method Man page
range,MFCLPar-method Man page
range,MFCLParBits-method Man page
range,MFCLRec-method Man page
range,MFCLRegion-method Man page
range,MFCLRep-method Man page
range,MFCLSel-method Man page
range,MFCLTag-method Man page
range,MFCLTagProj-method Man page
range,MFCLTagRep-method Man page
range,MFCLWgtFit-method Man page
range<-,MFCLALK,missing,numeric-method Man page
range<-,MFCLBase,missing,numeric-method Man page
range<-,MFCLBiol,missing,numeric-method Man page
range<-,MFCLCatch,missing,numeric-method Man page
range<-,MFCLFrq,missing,numeric-method Man page
range<-,MFCLFrqStats,missing,numeric-method Man page
range<-,MFCLIni,missing,numeric-method Man page
range<-,MFCLLenFit,missing,numeric-method Man page
range<-,MFCLPar,missing,numeric-method Man page
range<-,MFCLParBits,missing,numeric-method Man page
range<-,MFCLRec,missing,numeric-method Man page
range<-,MFCLRegion,missing,numeric-method Man page
range<-,MFCLRep,missing,numeric-method Man page
range<-,MFCLSel,missing,numeric-method Man page
range<-,MFCLTag,missing,numeric-method Man page
range<-,MFCLTagProj,missing,numeric-method Man page
range<-,MFCLTagRep,missing,numeric-method Man page
range<-,MFCLWgtFit,missing,numeric-method Man page
read.MFCLALK Man page Source code
read.MFCLBiol Man page Source code
read.MFCLCatch Man page Source code
read.MFCLCatchN Source code
read.MFCLCatchSim Man page Source code
read.MFCLCor Man page Source code
read.MFCLEffortSim Source code
read.MFCLFlags Man page Source code
read.MFCLFrq Man page Source code
read.MFCLFrq2 Man page Source code
read.MFCLFrqStats Man page Source code
read.MFCLIni Man page Source code
read.MFCLLenFit Man page Source code
read.MFCLLenFit2 Man page Source code
read.MFCLLenFreq Man page Source code
read.MFCLLenFreq2 Man page Source code
read.MFCLLikelihood Man page Source code
read.MFCLPar Man page Source code
read.MFCLParBits Man page Source code
read.MFCLProjectedNatAge Source code
read.MFCLProjectedSpawningBiomass Source code
read.MFCLPseudo Man page Source code
read.MFCLPseudoAlt Source code
read.MFCLPseudoCatch Source code
read.MFCLPseudoCatchEffort Man page Source code
read.MFCLPseudoEffort Source code
read.MFCLPseudoSizeComp Man page Source code
read.MFCLRec Man page Source code
read.MFCLRegion Man page Source code
read.MFCLRep Man page Source code
read.MFCLSel Man page Source code
read.MFCLSimulatedNatAge Man page Source code
read.MFCLTag Man page Source code
read.MFCLTagRep Man page Source code
read.MFCLVar Man page Source code
read.MFCLWgtFit Man page Source code
read.SBSBF0 Source code
read.fishmort Man page Source code
read.temporary_tag_report Source code
realisations Man page
recPeriod Man page Source code
recYears Man page
recYears,MFCLPar-method Man page
rec_dist Man page
rec_dist,MFCLIniBits-method Man page
rec_dist<- Man page
rec_dist<-,MFCLIniBits,numeric-method Man page
rec_init_pop_diff Man page
rec_init_pop_diff,MFCLRec-method Man page
rec_init_pop_diff<- Man page
rec_init_pop_diff<-,MFCLRec,numeric-method Man page
rec_month Man page
rec_month,MFCLFrqStats-method Man page
rec_month<- Man page
rec_month<-,MFCLFrqStats,numeric-method Man page
rec_orthogonal Man page
rec_orthogonal,MFCLRec-method Man page
rec_orthogonal<- Man page
rec_orthogonal<-,MFCLRec,FLQuant-method Man page
rec_region Man page
rec_region,MFCLRep-method Man page
rec_region<- Man page
rec_region<-,MFCLRep,FLQuant-method Man page
rec_standard Man page
rec_standard,MFCLRec-method Man page
rec_standard<- Man page
rec_standard<-,MFCLRec,FLQuant-method Man page
rec_standard_dim Man page
rec_standard_dim,MFCLRec-method Man page
rec_standard_dim<- Man page
rec_standard_dim<-,MFCLRec,numeric-method Man page
rec_times Man page
rec_times,MFCLRec-method Man page
rec_times<- Man page
rec_times<-,MFCLRec,numeric-method Man page
recaptures Man page
recaptures,MFCLTag-method Man page
recaptures<- Man page
recaptures<-,MFCLTag,data.frame-method Man page
recoveries Man page
recoveries,MFCLTag-method Man page
recoveries<- Man page
recoveries<-,MFCLTag,numeric-method Man page
region_fish Man page
region_fish,MFCLFrqStats-method Man page
region_fish<- Man page
region_fish<-,MFCLFrqStats,FLQuant-method Man page
region_flags Man page
region_flags,MFCLIniBits-method Man page
region_flags<- Man page
region_flags<-,MFCLIniBits,matrix-method Man page
region_pars Man page
region_pars,MFCLRegion-method Man page
region_pars<- Man page
region_pars<-,MFCLRegion,matrix-method Man page
region_rec_var Man page
region_rec_var,MFCLRegion-method Man page
region_rec_var<- Man page
region_rec_var<-,MFCLRegion,FLQuant-method Man page
region_size Man page
region_size,MFCLFrqStats-method Man page
region_size<- Man page
region_size<-,MFCLFrqStats,FLQuant-method Man page
regionflag Man page
rel_ini_pop Man page
rel_ini_pop,MFCLRec-method Man page
rel_ini_pop<- Man page
rel_ini_pop<-,MFCLRec,array-method Man page
rel_rec Man page
rel_rec,MFCLRec-method Man page
rel_rec<- Man page
rel_rec<-,MFCLRec,FLQuant-method Man page
release_groups Man page
release_groups,MFCLTag-method Man page
release_groups<- Man page
release_groups<-,MFCLTag,numeric-method Man page
release_groups_proj Man page
release_groups_proj,MFCLTagProj-method Man page
release_groups_proj<- Man page
release_groups_proj<-,MFCLTagProj,numeric-method Man page
release_lengths Man page
release_lengths,MFCLTag-method Man page
release_lengths<- Man page
release_lengths<-,MFCLTag,numeric-method Man page
releases Man page
releases,MFCLTag-method Man page
releases<- Man page
releases<-,MFCLTag,data.frame-method Man page
releases_proj Man page
releases_proj,MFCLTagProj-method Man page
releases_proj<- Man page
releases_proj<-,MFCLTagProj,data.frame-method Man page
rep_rate_dev_coffs Man page
rep_rate_dev_coffs,MFCLTagRep-method Man page
rep_rate_dev_coffs<- Man page
rep_rate_dev_coffs<-,MFCLTagRep,list-method Man page
rep_rate_proj Man page
rep_rate_proj,MFCLTagProj-method Man page
rep_rate_proj<- Man page
rep_rate_proj<-,MFCLTagProj,array-method Man page
richards Man page
richards,MFCLBiol-method Man page
richards<- Man page
richards<-,MFCLBiol,numeric-method Man page
rolling_mean_and_lagging Source code
scaler Man page
scaler,MFCLprojControl-method Man page
scaler<- Man page
scaler<-,MFCLprojControl,numeric-method Man page
sd_laa Man page
sd_laa,MFCLRep-method Man page
sd_laa<- Man page
sd_laa<-,MFCLRep,FLQuant-method Man page
sd_length_at_age Man page
sd_length_at_age,MFCLIniBits-method Man page
sd_length_at_age<- Man page
sd_length_at_age<-,MFCLIniBits,numeric-method Man page
sd_length_dep Man page
sd_length_dep,MFCLIniBits-method Man page
sd_length_dep<- Man page
sd_length_dep<-,MFCLIniBits,numeric-method Man page
season_flags Man page
season_flags,MFCLFrqStats-method Man page
season_flags<- Man page
season_flags<-,MFCLFrqStats,matrix-method Man page
season_growth_pars Man page
season_growth_pars,MFCLBiol-method Man page
season_growth_pars<- Man page
season_growth_pars<-,MFCLBiol,numeric-method Man page
season_q_pars Man page
season_q_pars,MFCLSel-method Man page
season_q_pars<- Man page
season_q_pars<-,MFCLSel,matrix-method Man page
sel Man page
sel,MFCLRep-method Man page
sel<- Man page
sel<-,MFCLRep,FLQuant-method Man page
sel_dev_coffs Man page
sel_dev_coffs,MFCLSel-method Man page
sel_dev_coffs2 Man page
sel_dev_coffs2,MFCLSel-method Man page
sel_dev_coffs2<- Man page
sel_dev_coffs2<-,MFCLSel,list-method Man page
sel_dev_coffs<- Man page
sel_dev_coffs<-,MFCLSel,matrix-method Man page
sel_dev_corr Man page
sel_dev_corr,MFCLSel-method Man page
sel_dev_corr<- Man page
sel_dev_corr<-,MFCLSel,FLQuant-method Man page
setMFCLversion Man page Source code
setSimYrs Source code
simyears Source code
spline Source code
splint Source code
spp_params Man page
spp_params,MFCLSel-method Man page
spp_params<- Man page
spp_params<-,MFCLSel,matrix-method Man page
srr Man page
srr,MFCLRep-method Man page
srr<- Man page
srr<-,MFCLRep,FLPar-method Man page
stripDebugNumbers Source code
subset Man page
subset,MFCLFrq-method Man page
summary,MFCLLikelihood-method Man page
summary_ini Man page Source code
survey_index Man page
survey_index,MFCLLikelihood-method Man page
survey_index<- Man page
survey_index<-,MFCLLikelihood,numeric-method Man page
sv,MFCLIniBits,missing-method Man page
sv<- Man page
sv<-,MFCLIniBits,numeric-method Man page
tag_controls Man page
tag_controls,MFCLPseudoControl-method Man page
tag_controls<- Man page
tag_controls<-,MFCLPseudoControl,data.frame-method Man page
tag_fish_rep_flags Man page
tag_fish_rep_flags,MFCLTagRep-method Man page
tag_fish_rep_flags<- Man page
tag_fish_rep_flags<-,MFCLTagRep,array-method Man page
tag_fish_rep_grp Man page
tag_fish_rep_grp,MFCLTagRep-method Man page
tag_fish_rep_grp<- Man page
tag_fish_rep_grp<-,MFCLTagRep,array-method Man page
tag_fish_rep_pen Man page
tag_fish_rep_pen,MFCLTagRep-method Man page
tag_fish_rep_pen<- Man page
tag_fish_rep_pen<-,MFCLTagRep,array-method Man page
tag_fish_rep_rate Man page
tag_fish_rep_rate,MFCLEMControl-method Man page
tag_fish_rep_rate,MFCLPseudoControl-method Man page
tag_fish_rep_rate,MFCLTagRep-method Man page
tag_fish_rep_rate<- Man page
tag_fish_rep_rate<-,MFCLEMControl,numeric-method Man page
tag_fish_rep_rate<-,MFCLPseudoControl,numeric-method Man page
tag_fish_rep_rate<-,MFCLTagRep,array-method Man page
tag_fish_rep_target Man page
tag_fish_rep_target,MFCLTagRep-method Man page
tag_fish_rep_target<- Man page
tag_fish_rep_target<-,MFCLTagRep,array-method Man page
tag_lik Man page
tag_lik,MFCLParBits-method Man page
tag_lik<- Man page
tag_lik<-,MFCLParBits,numeric-method Man page
tag_rel_fish Man page
tag_rel_fish,MFCLLikelihood-method Man page
tag_rel_fish<- Man page
tag_rel_fish<-,MFCLLikelihood,list-method Man page
tag_shed_rate Man page
tag_shed_rate,MFCLTagRep-method Man page
tag_shed_rate<- Man page
tag_shed_rate<-,MFCLTagRep,numeric-method Man page
tagflag Man page
tot_pop Man page
tot_pop,MFCLRec-method Man page
tot_pop<- Man page
tot_pop<-,MFCLRec,numeric-method Man page
tot_pop_implicit Man page
tot_pop_implicit,MFCLRec-method Man page
tot_pop_implicit<- Man page
tot_pop_implicit<-,MFCLRec,numeric-method Man page
totalBiomass Man page
totalBiomass,MFCLRep-method Man page
totalBiomass<- Man page
totalBiomass<-,MFCLRep,FLQuant-method Man page
totalBiomass_nofish Man page
totalBiomass_nofish,MFCLRep-method Man page
totalBiomass_nofish<- Man page
totalBiomass_nofish<-,MFCLRep,FLQuant-method Man page
total_catch Man page
total_catch,MFCLCatch-method Man page
total_catch<- Man page
total_catch<-,MFCLCatch,FLQuant-method Man page
total_catch_fish Man page
total_catch_fish,MFCLLikelihood-method Man page
total_catch_fish<- Man page
total_catch_fish<-,MFCLLikelihood,numeric-method Man page
total_length_fish Man page
total_length_fish,MFCLLikelihood-method Man page
total_length_fish<- Man page
total_length_fish<-,MFCLLikelihood,numeric-method Man page
total_weight_fish Man page
total_weight_fish,MFCLLikelihood-method Man page
total_weight_fish<- Man page
total_weight_fish<-,MFCLLikelihood,numeric-method Man page
trim Man page
trim,MFCLFrqStats-method Man page
unused Man page
unused,MFCLFlags-method Man page
unused<- Man page
unused<-,MFCLFlags,list-method Man page
update,MFCLFrq-method Man page
validMFCLALK Source code
validMFCLBiol Source code
validMFCLCatch Source code
validMFCLEMControl Source code
validMFCLEquilibrium Source code
validMFCLFlags Source code
validMFCLFrq Source code
validMFCLFrq2 Source code
validMFCLFrqStats Source code
validMFCLIni Source code
validMFCLIniBits Source code
validMFCLLenFit Source code
validMFCLLenFreq Source code
validMFCLLenFreq2 Source code
validMFCLLikelihood Source code
validMFCLMSEControl Source code
validMFCLPar Source code
validMFCLParBits Source code
validMFCLPseudo Source code
validMFCLPseudoControl Source code
validMFCLRec Source code
validMFCLRegion Source code
validMFCLRep Source code
validMFCLSel Source code
validMFCLTag Source code
validMFCLTagProj Source code
validMFCLTagRep Source code
validMFCLWgtFit Source code
validMFCLprojControl Source code
vulnBiomass Man page
vulnBiomass,MFCLRep-method Man page
vulnBiomass<- Man page
vulnBiomass<-,MFCLRep,FLQuant-method Man page
w_frq Man page
w_frq,MFCLPseudo-method Man page
w_frq<- Man page
w_frq<-,MFCLPseudo,data.frame-method Man page
waa Man page
waa,MFCLBiol-method Man page
waa,MFCLWgtFit-method Man page
waa<- Man page
waa<-,MFCLWgtFit,FLQuant-method Man page
weight_fish Man page
weight_fish,MFCLLikelihood-method Man page
weight_fish<- Man page
weight_fish<-,MFCLLikelihood,list-method Man page
wgtagefits Man page
wgtagefits,MFCLWgtFit-method Man page
wgtagefits<- Man page
wgtagefits<-,MFCLWgtFit,data.frame-method Man page
wgtfits Man page
wgtfits,MFCLWgtFit-method Man page
wgtfits<- Man page
wgtfits<-,MFCLWgtFit,data.frame-method Man page
window,MFCLFrq-method Man page
write Man page
write,MFCLALK-method Man page
write,MFCLFrq-method Man page
write,MFCLFrqStats-method Man page
write,MFCLIni-method Man page
write,MFCLLenFreq-method Man page
write,MFCLPar-method Man page
write,MFCLTag-method Man page
write,MFCLTagProj-method Man page
write.alk Source code
write.ini Source code
write.len Source code
write.par Source code
write.simNumAge Source code
write.simyears Source code
write.stat Source code
write.tag Source code
write.tagproj Source code
wtfrq Man page
wtfrq,MFCLLenFreq2-method Man page
wtfrq<- Man page
wtfrq<-,MFCLLenFreq2,data.frame-method Man page
xdiff_coffs Man page
xdiff_coffs,MFCLRegion-method Man page
xdiff_coffs<- Man page
xdiff_coffs<-,MFCLRegion,matrix-method Man page
y1diff_coffs Man page
y1diff_coffs,MFCLRegion-method Man page
y1diff_coffs<- Man page
y1diff_coffs<-,MFCLRegion,matrix-method Man page
y2diff_coffs Man page
y2diff_coffs,MFCLRegion-method Man page
y2diff_coffs<- Man page
y2diff_coffs<-,MFCLRegion,matrix-method Man page
zdiff_coffs Man page
zdiff_coffs,MFCLRegion-method Man page
zdiff_coffs<- Man page
zdiff_coffs<-,MFCLRegion,matrix-method Man page
robscott3/FLR4MFCL documentation built on April 9, 2024, 3:31 p.m.

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