Plot natural mortality (M) at age

Plot natural mortality (M) at age

plot_natural_mortality(
  dat,
  group = NULL,
  facet = NULL,
  era = NULL,
  interactive = TRUE,
  module = NULL,
  make_rda = FALSE,
  figures_dir = getwd(),
  ...
)

Arguments

dat

A tibble or named list of tibbles (input as `list()`) returned from convert_output.

If inputting a list of tibbles, the first tibble's reference point defined in `ref_line` is used to plot a reference line or calculate relative spawning biomass.

group

A string of a single column that groups the data.

Set group = "none" to summarize data over all indexing values.

Default: NULL Options: Including, but not limited to: "year", "area", "fleet", "sex", "none", NULL

facet

A string or vector of strings of a column name.

Default: NULL

era

A string naming the era of data.

Default: "time"

Options: "early", "time", "fore" (forecast), or NULL (all data)

interactive

A logical value indicating if the environment is interactive.

Default: `FALSE`

module

(Optional) A string indicating the module_name found in `dat`. If selecting >1 module, place them in a vector like c("module1", "module2").

Default: NULL

If the interactive and >1 module_name is found, user will select the module_name in the console. @seealso [filter_data()]

make_rda

A logical value indicating whether to save the object and make an automated caption and alternative text in the form of an `rda` object. If TRUE, the rda will be exported to the folder indicated in the argument "figures_dir".

Default: `FALSE`.

figures_dir

A string indicating a path to the "figures" folder.

Default: `getwd()`

The folder is created within the path if it does not exist.

...

Arguments called from geom_line or geom_point

Value

A plot showing natural mortality at age.

Details

The input is from an assessment model output file translated to a standardized output (convert_output). There are options to return a `ggplot2` object or export an .rda object containing associated caption and alternative text for the figure.

See also

[convert_output()], [filter_data()], [process_data()], [plot_timeseries()], [export_kqs()], [insert_kqs()], [create_rda()]

Examples

plot_natural_mortality(
  dat = stockplotr:::example_data,
  module = "Natural_Mortality",
  interactive = FALSE
)
#> Ignoring unknown labels:
#> • linetype : "Sex"
#> • shape : "Sex"