Man pages for einarhjorleifsson/fishvise
Miscalaneous set of functions related fish stock assessment work

align_ssb_rAlign stock and recruitment data
apply.shrinkapply.shrink
bevholt_srmsymcbevholt_srmsymc
calc.quantilesCalculate quantiles
cn_keysXX
compile_admb2Compile admb code
d2rConverts lat and lon to statistical squares
date_2_qyearConverts date to correponding quota year
date_2_qyear_startConverts date to first date (1. september) of each quota year
do_ggplotDo a ggplot
fishvise-packageTitle Fishvice package
FLStock2rbyaConvert FLStock (or FLSAM) object long data.frame
get_fileget_file
get_fit_samget_fit_sam
get_samget_sam
gJoingJoin
grep2grep2
hcr_dynamic_plotXXX
hcr_equilibrium_plotXXX
hcr_implementation_model_1Add implementation error to TAC
hcr_management_bioBiomass-based Harvest Control Rule
hcr_management_effortEffort type management
hcr_management_fmortF-based Harvest Control Rule
hcr_observation_errorObservation error model
hcr_operating_modelOperating model
hcr_operating_model2Operating model2
hcr_read_ctrHCR - Read control file
hcr_read_startfileHCR: Reading starting years input from file
hcr_recruitment_modelHCR recruitment model
hcr_recruitment_model2hcr_recruitment_model2
hcr_set_assErrorsHCR: Setup of assessment errors
hcr_set_dimensionsInitial HCR objects
hcr_set_recErrorsHCR: Setup of recruitment error structure
hcr_set_recErrors2HCR: Setup of recruitment error structure
hcr_set_starting_conditionsHCR: Set starting condition for stock
hcr_set_wgtErrorsHCR: Setup of weight error structure
hcr_summarise_dataXXX
hcr_TAC_to_Fmulthcr_TAC_to_Fmult
i50Calculate quantiles
i80Calculate quantiles
i90Calculate quantiles
iconvDFConverts character columns in a 'data.frame' between...
mac_srest_catWrite srest.dat to disk
mb_gridGMTGridding data using nearneighbor gmt function
mb_sqlSQL function for reading SQLite database
process_error_samprocess_error_sam
r2dConverts statistical squares to degrees
RattachRattach
read_adaptReads 'adapt' assessment results
read_adcamReads 'adcam' assessment results
read_conf_samread_conf_sam
read_fit_samread_fit_sam
read_ibya_lowestoftread_ibya_lowestoft
read_lowestoftRead in Lowestoft-format VPA data
read_lowestoft2read_lowestoft2
read_lowestoft_fileread_lowestoft_file
read_lowestoft_surveyRead in Lowestoft-format survey data
read_preludeReads prelude-files
read_rbyReads results-by-year (sum file)
read_rbyaReads results-by-year-and-age
read_rbya_samread_rbya_sam
read_rbya_tasacread_rbya_tasac
read_rby_samread_rby_sam
read_samread_sam
read_senRead .sen file
read_separReads 'separable' assessment results
recruit1Hockey stick recruitment model
recruit2Bootstrap model
replace.textReplace characters
residplotresidplot
ricker_srmsymcricker_srmsymc
rvk2FLStockConvert rvk-format to FLStock object
rvk2icesxmlrvk2icesxml
sdevsdev
segreg_srmsymcsegreg_srmsymc
sr2dConverts small statistical squares to degrees
sr2limSet the limits for small statistical squares
standard_attribute_listStandard attribute structure
str_trim_commasTrim 'commas' from start and end of string
str_trim_tabTrim 'tabs' from start and end of string
trim_shape_dftrim_shape_df
wget_sam_runwget_sam_run
write_preludeWrites prelude-file
yprypr
ypr_single_targetypr
einarhjorleifsson/fishvise documentation built on May 13, 2017, 3:08 p.m.