Description Usage Arguments Value
View source: R/chlorophyllCalc.R
chlorophyllCalc Use the relevant local area of influence (calculated using the butterfly algorithm) to find chlorophyll levels over time
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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 |
A data.table, containing variables for date and chlorophyll level
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