chlorophyllCalc: chlorophyllCalc Use the relevant local area of influence...

In rossholmberg/pkgButterfly: Functions to calculate relevant local oceanographic variables based on Afan et. al

Description

chlorophyllCalc Use the relevant local area of influence (calculated using the butterfly algorithm) to find chlorophyll levels over time

Usage

chlorophyllCalc(input.file, data.variable = "chl", lat.varname = NULL,
  lon.varname = NULL, timeseries = NULL, time.varname = NULL,
  conductance.data, max.day.diff = 10, exclude.nas = TRUE,
  depth.varname = NULL, depth.dimension = NULL, depth.touse = NULL)

Arguments

input.file	.nc file containing chlorophyll levels for the entire area of influence
data.variable	character string corresponding to the relevant data subset within the .nc file (defaults to "chlorophyll")
lat.varname	name of latitude variable, automatic searching is used if NULL
lon.varname	name of longitude variable, automatic searching is used if NULL
timeseries	manually extracted timeseries data as "Date" class, to override automatic extraction from file
time.varname	name of time variable, automatic searching is used if NULL
conductance.data	input for calculation
max.day.diff	integer, number of days to allow as a difference between a conductance array
exclude.nas	should NA values be excluded?
depth.varname	name of depth variable in .nc file, auto matching used if NULL
depth.dimension	if a depth dimension is present, specify which dimension it is. auto-matching used if NULL
depth.touse	if a depth dimension is present, specify which value to use. default NULL will use minimum available depth

Value

A data.table, containing variables for date and chlorophyll level

rossholmberg/pkgButterfly documentation built on May 27, 2019, 11:36 p.m.