tlu_get_casts: Wrapper function to retrieve cast data and aggregate

In sean-rohan/trawllight: Derive apparent optical properties from trawl-mounted light sensors

Wrapper function to retrieve cast data and aggregate

Description

Description goes here... writes binned cast data to an rds file after interpolating missing surface values.

Usage

tlu_get_casts(
  directory_structure = NULL,
  survey,
  cast.dir = "downcast",
  time.buffer = 20,
  bin.size = 2,
  bin.gap = 6,
  agg.fun = geometric.mean,
  silent = TRUE,
  ...
)

Arguments

directory_structure	File path to csv file that lists directories to be processed.
survey	RACE survey region as a character vector ("BS", "NBS", "AI", "GOA" or "SLOPE")
cast.dir	Cast direction, either "upcast" or "downcast"
time.buffer	Time buffer in seconds to add/subtract from upcast and downcast times. Default = 20
bin.size	Passed to trawllight::filter_stepwise. Depth bin size for aggregating light measurements. Default = 2
bin.gap	Passed to trawllight::filter_stepwise. Maximum allowable gap in observations before a profile is considered to not meet continuity standards. Default = 6 (i.e., three bins if bin.size = 2)
agg.fun	Function used to calculate summary statistic for a depth bin. Default = geometric.mean
silent	Passed to...
...	Optional arguments passed to filter_stepwise or calculate_attenuation.

sean-rohan/trawllight documentation built on Jan. 13, 2023, 10:43 p.m.