Lecture 2: Modeling of Land Surface Phenology with satellite imagery

Lecture 2: Modeling of Land Surface Phenology with satellite imagery

Kirsten M. de Beurs, Ph.D.

Assistant Professor of Geography

Center for Environmental and Applied Remote Sensing (CEARS)

Virginia Polytechnic Institute and State University

Kdebeurs@vt.edu

http://www.mapseasons.net

Madison LSP Workshop: 08 APR 2008

Southwest Virginia

Northeastern Maine

Death Valley

Corn/Soy belt Central Illinois

Tundra Northern Alaska

Phenological MetricsPhenological Metrics• Phenological metrics describe the

phenology of vegetation growth as observed by satellite imagery.

• Standard metrics derived are:– Onset of greening– Onset of senescence– Timing of Maximum of the Growing Season– Growing season length

• However, there are many more metrics available.

SOS

Start of Season

End of Season

Duration of Season

Rate

of

Gre

enup

Maximum NDVI

Time Integrated

NDVI

Rate

of

Senesce

nce

Phenological Metric Phenological Metric Phenological InterpretationPhenological Interpretation

• Time of SOS (EOS): beginning (end) of measurable photosynthesis.

• Length of the growing season: duration of photosynthetic activity.

• Time of Maximum NDVI: time of maximum photosynthesis.

• NDVI at SOS (EOS): level of photosynthetic activity at SOS (EOS).

• Seasonal integrated NDVI: photosynthetic activity during the growing season.

• Rate of greenup (senescence): speed of increase (decrease) of photosynthesis.

Ground ValidationGround Validation

• It is desirable to compare the satellite derived phenological estimates with data observed at ground level.

• However this is not a trivial task due to:– Large pixel sizes of satellite imagery.– Composited data.

• Thus, it is often unclear what LSP metrics actually track.

Four Categories:Four Categories:

• A diversity of satellite measures and methods has been developed.

• The methods can be divided into four main categories:– Threshold– Derivatives– Smoothing Algorithms– Model fit

ThresholdsThresholds

When do you estimate that the growing season starts?

0

0.1

0.2

0.3

0.4

0.5

0.6

0.7

0.8

J F M A M J J A S O N D

Months

ND

VI

0

0.1

0.2

0.3

0.4

0.5

0.6

0.7

0.8

J F M A M J J A S O N D

Months

ND

VI

0

0.1

0.2

0.3

0.4

0.5

0.6

0.7

0.8

J F M A M J J A S O N D

Months

ND

VI

ThresholdsThresholds

0

0.1

0.2

0.3

0.4

0.5

0.6

0.7

0.8

J F M A M J J A S O N D

Months

ND

VI

SOS EOS

• Simplest method to determine SOS and EOS.• Threshold is arbitrarily set at a certain level (e.g. 0.09, 0.17, 0.3

etc).

ThresholdsThresholds

• Measure is easy to apply.• However, across the conterminous

US, NDVI threshold can vary from 0.08 to 0.40.

• Thus, it is inconsistent when applied towards large areas.

Thresholds based on NDVI Thresholds based on NDVI ratiosratios

• First, translate NDVI to a ratio based on the annual minimum and maximum:NDVIratio = (NDVI-NDVImin) /

(NDVImax-NDVImin)

0

0.2

0.4

0.6

0.8

1

J F M A M J J A S O N D

Months

ND

VIr

atio

0

0.2

0.4

0.6

0.8

1

J F M A M J J A S O N D

Months

ND

VIr

atio

0

0.2

0.4

0.6

0.8

1

J F M A M J J A S O N D

Months

ND

VI

0

0.2

0.4

0.6

0.8

1

J F M A M J J A S O N D

Months

ND

VI

• Some believe that rapid growth is more important than first leaf occurrence or bud burst.

• Lower likelihood of soil – vegetation confusion than at lower thresholds.

• 50% is the most often used threshold.

• The increase in greenness is believed to be most rapid at this threshold.0

0.2

0.4

0.6

0.8

1

J F M A M J J A S O N D

Months

ND

VIr

atio

0

0.2

0.4

0.6

0.8

1

J F M A M J J A S O N D

Months

ND

VIr

atio

50% Threshold (Seasonal Mid-point)50% Threshold (Seasonal Mid-point)

(White et al., mean day = 124, May 4th)

DerivativesDerivatives

• What is a derivative?• What is the slope of this line?• Why?

0

10

20

30

40

50

60

0 5 10 15 20

0

5

10

15

20

25

30

0 5 10 15 20

-5

-4

-3

-2

-1

0

1

2

3

4

5

0 5 10 15 20

Local Local DerivativeDerivative

Derivative is calculated based on 3 composites.

(Week 3 – Week 1) / (difference in days)

SOS: day where derivative is highest

EOS: day where derivative is lowest

0

0.2

0.4

0.6

0.8

1

J F M A M J J A S O N D

Months

ND

VI

-0.009

-0.004

0.001

0.006

0.011

J F M A M J J A S O N D

Months

Der

ivat

ive

-0.009

-0.004

0.001

0.006

0.011

J F M A M J J A S O N D

Months

Der

ivat

ive

0

0.1

0.2

0.3

0.4

0.5

0.6

0.7

0.8

J F M A M J J A S O N D

Months

ND

VI

-0.005

-0.003

-0.001

0.001

0.003

0.005

0.007

0.009

0.011

J F M A M J J A S O N D

Months

Der

ivat

ive

-0.005

-0.003

-0.001

0.001

0.003

0.005

0.007

0.009

0.011

J F M A M J J A S O N D

Months

Der

ivat

ive

Smoothing AlgorithmsSmoothing Algorithms

• Autoregressive moving average• Fourier analysis

Autoregressive moving Autoregressive moving averageaverage

• Frequently used method developed in the early 1990’s by Dr. Brad Reed.

• Works similarly as the thresholds method, however the threshold is established by a moving average.

• What is a moving average?

Autoregressive moving Autoregressive moving averageaverage

• You take the average of a certain number of time periods.

• Each time period you shift one over.

0

0.1

0.2

0.3

0.4

0.5

0.6

0.7

0.8

0.9

J F M A M J J A S O N D

ND

VI

Months

0

0.1

0.2

0.3

0.4

0.5

0.6

0.7

0.8

0.9

J F M A M J J A S O N D

ND

VI

Months

Autoregressive moving Autoregressive moving averageaverage

• The time lag used to calculate the forward and backward looking curves is arbitrarily chosen.

• Brad Reed (1994) used a time lag of 9 composites.

• In case of shorter seasons (semi-arid Africa) shorter time lags have been used (~2 months or 4 composites).

Archibald and Scholes (2007).

Archibald and Scholes (2007).

Limitations of the moving Limitations of the moving average methodaverage method

• How would the moving average curve look in case of a major disturbance?

• The method does not work in case of multi-peak growing seasons.

• There are no clear criteria regarding the selection of the delay time.

Fourier AnalysisFourier Analysis

• Fourier analysis approximates complicated curves with a sum of sinusoidal waves at multiple frequencies.

• The more components are included the more the sum approximates the signal.

• In phenological studies:– Amplitude:

variability of productivity

– Phase: measures the timing of the peak.

de Beurs and Henebry, 2008

Limitations of Fourier Limitations of Fourier AnalysisAnalysis

• The Fourier composites do not necessarily have an ecological interpretation.

• This approach is only useful for a study region that you know really well.

• The method requires long time series, with observations that are equally spaced.

• Missing values (clouds!) have to be filled.• NDVI signals are typically not exactly

sinusoidal, so it is necessary to fit several terms.

ComplicateComplicated d

adjustmentadjustmentss

High order annual splines with roughness dampening.

Hermance et al. 2007

Bradley et al 2007

Model fitModel fit

• Models based on growing degree days

• Logistic Models• Gaussian Local Functions

Growing Degree DaysGrowing Degree Days

• Development rate of plants and insects is temperature dependent.

• A plant develops quicker at a higher temperature.• Daily temperature readings can be used to

calculate growing degree-days• Growing degree days are a measure of

accumulated heat.• Idea was first introduced in 1735 by Reaumur.

Growing Degree DaysGrowing Degree Days

• Accumulated temperature is now recognized as the main factor influencing year-to-year variation in phenology.

• Photoperiod alone, without the interaction with temperature, cannot explain the annual variability of phenology at a given location.

• Photoperiod is the same in each year.

o Intercept: α

o Green-up periodpeak position (%hum):

o NDVI peak height:

2

2AGDDAGDDNDVI

4

2

Intercept: NDVI at the start of the observed growing season.

Start of Season: First composite included in the best model.

NDVI peak height:NDVI at peak NDVI.

Green-up period (DOY): Translated from accumulated relative humidity, the number of days necessary to reach peak NDVI

• Straightforward logistic model • a and b are empirical coefficients that are associated

with the timing and rate of change in EVI.

Logistic ModelsLogistic Models

de

ctEVI

bta

1

de

ctEVI

bta

1

de

ctEVI

bta

1

• c+d combined give the potential maximum value

• d presents the minimum value (the background EVI value).

• This model can be approximated with numerical methods such as Levenberg-Marquardt

Zhang, 2004

Onset_Greenness_Increase days since 1 January 2000 16-bit Onset_Greenness_Maximum days since 1 January 2000 16-bit Onset_Greenness_Decrease days since 1 January 2000 16-bit Onset_Greenness_Minimum days since 1 January 2000 16-bit NBAR_EVI_Onset_Greenness_Minimum NBAR EVI value 16-bit unsigned NBAR_EVI_Onset_Greenness_Maximum NBAR EVI value 16-bit unsigned NBAR_EVI_Area NBAR EVI area

16-bit unsigned

MODIS/Terra Land Cover Dynamics Yearly L3 Global 1km SIN Grid: MOD12Q2

Gaussian Local FunctionsGaussian Local Functions

14

1

12

1

21

if ,exp

if ,exp

5

3

ata

ta

ata

at

ccNDVIa

a

The upper part of the equation is fitted to the right half of the time series. The lower part of the equation fits to the left half of the time series.

a2 and a4: the width of the curves a3 and a5: the flatness (or kurtosis) of the curves

c1 and c2: base parameters determine the intercept and the amplitude of the curves, respectively. a1: the timing of the maximum (measured in time units).

Jönsson and Eklundh, 2002 and Jönsson and Eklundh, 2004

Gaussian Local FunctionsGaussian Local Functions

• Applied in a program called TIMESAT

MODIS phenology for the North American Carbon Program

Annual phenology data based on:– NDVI, EVI, LAI or FPAR

• Spatial resolution: 250m or 500m

Phenology data include: greenup date, browndown date, length of growing season, minimum NDVI, date of peak NDVI, peak NDVI, seasonal amplitude, greenup rate, browndown rate, seasonal integrated NDVI, maximum NDVI during the year, quality control map, land cover map.

http://accweb.nascom.nasa.gov/data/