spline_uni_2: spline_uni_2

In ldbk/Rplanktonanalytic: What the Package Does (One Line, Title Case)

Description

Identification of annual bloom descriptors dates based on smoothing splines. The function automatically exludes those years containing less than 75% of the possible observations for the temporal scale considered.

Usage

spline_uni_2(
  x,
  ab_treshold = 0.5,
  obs_year = 2,
  s_param = 0.35,
  t_scale = 52,
  S.NAME = "",
  control = 0
)

Arguments

x	a dataframe having the first 7 columns named as "location", "station", "date", "year", "month", "week", "day", other columns corresponds to the species columns
ab_treshold	quantile of the positive abundance distribution (default 0.75)
obs_year	minimum number of samples for each year in which the species shows an abundance>0 (default 2)
s_param	the smoothing parameter corresponding to the spar parameters
t_scale	temporal scale resolution of the data, 52 for weekly data, 12 for monthly data (default 52) of the smooth.spline function (default 0.35).
S.NAME	name of the species column
control	control the flexibility of the function (default 0)

Value

a dataframe containing the annual time vector, the value vector and info a character vector with 'Start', 'Max' and 'End' for the seasonal peak and NA for the other date

Examples

## Not run: 
  data("phytopknar")
   phytopknar_ret <- ret_time(phytopknar)
   phytopknar_ret_ord <- phytopknar_ret %>% dplyr::select(location,station,date,year,month,week,day,everything())
   spline_uni_2(phytopknar_ret_ord,ab_treshold=0.75,obs_year=2,s_param=0.35,t_scale=52,control=0,S.NAME="Cylindrotheca closterium")

## End(Not run)

ldbk/Rplanktonanalytic documentation built on June 29, 2021, 9:23 p.m.