Man pages for einarhjorleifsson/fishvise
Miscalaneous set of functions related fish stock assessment work
| align_ssb_r | Align stock and recruitment data |
| apply.shrink | apply.shrink |
| bevholt_srmsymc | bevholt_srmsymc |
| calc.quantiles | Calculate quantiles |
| cn_keys | XX |
| compile_admb2 | Compile admb code |
| d2r | Converts lat and lon to statistical squares |
| date_2_qyear | Converts date to correponding quota year |
| date_2_qyear_start | Converts date to first date (1. september) of each quota year |
| do_ggplot | Do a ggplot |
| fishvise-package | Title Fishvice package |
| FLStock2rbya | Convert FLStock (or FLSAM) object long data.frame |
| get_file | get_file |
| get_fit_sam | get_fit_sam |
| get_sam | get_sam |
| gJoin | gJoin |
| grep2 | grep2 |
| hcr_dynamic_plot | XXX |
| hcr_equilibrium_plot | XXX |
| hcr_implementation_model_1 | Add implementation error to TAC |
| hcr_management_bio | Biomass-based Harvest Control Rule |
| hcr_management_effort | Effort type management |
| hcr_management_fmort | F-based Harvest Control Rule |
| hcr_observation_error | Observation error model |
| hcr_operating_model | Operating model |
| hcr_operating_model2 | Operating model2 |
| hcr_read_ctr | HCR - Read control file |
| hcr_read_startfile | HCR: Reading starting years input from file |
| hcr_recruitment_model | HCR recruitment model |
| hcr_recruitment_model2 | hcr_recruitment_model2 |
| hcr_set_assErrors | HCR: Setup of assessment errors |
| hcr_set_dimensions | Initial HCR objects |
| hcr_set_recErrors | HCR: Setup of recruitment error structure |
| hcr_set_recErrors2 | HCR: Setup of recruitment error structure |
| hcr_set_starting_conditions | HCR: Set starting condition for stock |
| hcr_set_wgtErrors | HCR: Setup of weight error structure |
| hcr_summarise_data | XXX |
| hcr_TAC_to_Fmult | hcr_TAC_to_Fmult |
| i50 | Calculate quantiles |
| i80 | Calculate quantiles |
| i90 | Calculate quantiles |
| iconvDF | Converts character columns in a 'data.frame' between... |
| mac_srest_cat | Write srest.dat to disk |
| mb_gridGMT | Gridding data using nearneighbor gmt function |
| mb_sql | SQL function for reading SQLite database |
| process_error_sam | process_error_sam |
| r2d | Converts statistical squares to degrees |
| Rattach | Rattach |
| read_adapt | Reads 'adapt' assessment results |
| read_adcam | Reads 'adcam' assessment results |
| read_conf_sam | read_conf_sam |
| read_fit_sam | read_fit_sam |
| read_ibya_lowestoft | read_ibya_lowestoft |
| read_lowestoft | Read in Lowestoft-format VPA data |
| read_lowestoft2 | read_lowestoft2 |
| read_lowestoft_file | read_lowestoft_file |
| read_lowestoft_survey | Read in Lowestoft-format survey data |
| read_prelude | Reads prelude-files |
| read_rby | Reads results-by-year (sum file) |
| read_rbya | Reads results-by-year-and-age |
| read_rbya_sam | read_rbya_sam |
| read_rbya_tasac | read_rbya_tasac |
| read_rby_sam | read_rby_sam |
| read_sam | read_sam |
| read_sen | Read .sen file |
| read_separ | Reads 'separable' assessment results |
| recruit1 | Hockey stick recruitment model |
| recruit2 | Bootstrap model |
| replace.text | Replace characters |
| residplot | residplot |
| ricker_srmsymc | ricker_srmsymc |
| rvk2FLStock | Convert rvk-format to FLStock object |
| rvk2icesxml | rvk2icesxml |
| sdev | sdev |
| segreg_srmsymc | segreg_srmsymc |
| sr2d | Converts small statistical squares to degrees |
| sr2lim | Set the limits for small statistical squares |
| standard_attribute_list | Standard attribute structure |
| str_trim_commas | Trim 'commas' from start and end of string |
| str_trim_tab | Trim 'tabs' from start and end of string |
| trim_shape_df | trim_shape_df |
| wget_sam_run | wget_sam_run |
| write_prelude | Writes prelude-file |
| ypr | ypr |
| ypr_single_target | ypr |
