PhenKplot: PhenKplot

In JoseLastra/npphen: Vegetation Phenological Cycle and Anomaly Detection using Remote Sensing Data

PhenKplot

Description

Plot the most probable vegetation greenness values.

Usage

PhenKplot(x, dates, h, xlab, ylab, rge)

Arguments

x	Numeric vector with greenness values
dates	Vector with dates at which the greenness values were recorded
h	Numeric. Indicates the geographic hemisphere to define the starting date of the growing season. h=1 if the vegetation is in the Northern Hemisphere (season starting at January 1st), h=2 if it is in the Southern Hemisphere (season starting at July 1st)
xlab	Character vector (or expression) giving plot title in x axis label
ylab	Caracter vector (or expression) giving plot title in y axis label
rge	A vector containing minimum and maximum values of the response variable used in the analysis. We suggest the use of theoretically based limits. For example in the case of MODIS NDVI or EVI, it ranges from 0 to 10,000, so rge =c(0,10000)

Details

It is the graphical version of the Phen function. It calculates and plot a likelihood map of the vegetation-greenness – time space using a numeric vector of vegetation canopy greenness values (e.g. Leaf Area Index (LAI) or greenness proxies values such as the Normalized Difference Vegetation Index (NDVI) or Enhanced Vegetation Index (EVI). Also a vector with dates for the greenness values is required. This function calculates the confidence areas on a per year basis. Functions for confidence intervals on per day basis are under development. This function is partially based on the ci2d function on package gplots.

See Also

Phen

Examples

library(lubridate)

## Testing raster data from Central Chile (NDVI), h=2##

# Load data
#RasterStack
data("MegaDrought_stack")
#Dates
data("dates")

# Generate a Raster time series using a raster stack and a date database from Central Chile
# Obtain data from a particular pixel generating a time series
md_pixel <- cellFromXY(MegaDrought_stack,c(313395,6356610))
md_pixelts <- as.numeric(MegaDrought_stack[md_pixel])
plot(dates,md_pixelts, type='l')

# Phenology for the given pixel
PhenKplot(x=md_pixelts,dates=dates,h=2,xlab="DGS", ylab="NDVI", rge=c(0,10000))


## Testing raster data from Blooming desert, Northern Chile (NDVI), h=2 ##

# Load data
#RasterStack
data("Bdesert_stack")
#Dates
data("dates")

# Generate a Raster time series using a raster stack and a date database from Northern Chile
# Obtain data from a particular pixel generating a time series
bd_pixel<-cellFromXY(Bdesert_stack,c(286638,6852107))
bd_pixelts<-as.numeric(Bdesert_stack[bd_pixel])
plot(dates,bd_pixelts, type = 'l')

# Phenology for the given pixel
PhenKplot(x=bd_pixelts,dates=dates,h=2,xlab = 'DGS',ylab = 'NDVI',rge=c(0,10000))

JoseLastra/npphen documentation built on May 13, 2022, 8:08 p.m.