Man pages for SPRFMO/jjmr
Graphics and diagnostics tools for SPRFMO's Joint Jack Mackerel model
| changeNameModel | Change the internal name of a model |
| combineModels | Combine outputs |
| compareModels | Compare combined JJM outputs |
| diagnostics | Generate Assessment plots from single model |
| fixed_bmsy | Calculate or input a fixed Bmsy value for the jjm model... |
| get_age_fits | Get fits to indices |
| get_catchabilities | Get estimated catchability coefficients |
| get_fishing_mortality | Get fishing mortality at age |
| geth | Add hypothesis number to a model name |
| get_index_fits | Get fits to indices |
| get_len_fits | Get fits to length compositions |
| get_msy_mt | Get and tidy msy_my table |
| get_recruits | Get estimated recruits |
| get_selectivities | Get and tidy selectivity-at-age ogives over time by model and... |
| getter | Get elements of a list by string matching on name |
| get_totals | Get total metrics (biomass, spawning biomass, and... |
| jjmR-package | Tools to process and get results from Joint Jack Mackerel... |
| kobe | Kobe plot |
| pipe | Pipe operator |
| plot_selectivities | Plot selectivities by age, year, fleet, and model |
| readExFiles | Read external files |
| readJJM | Read a model or list of models |
| readJJMConfig | Read dat and ctl files from disk to create a jjm.config... |
| report | Create a report from JJM outputs |
| retro | Run a retrospective analysis diagnostic for a JJM model |
| runit | Fit, run, read and plot a JJM model |
| runJJM | Run a JJM model |
| theme_jjm | ggplot2 theme for jjmR |
| tidy_JJM | Tidy results of JJM model |
| writeJJM | Write dat and ctl files from a JJM model stored in R |
