Structural Complexity and Phenology

Usage Rights

This data is Free within projects.

Intellectual rights belong to the authors.The authors will freely share this data with all FunDiv members but would like to be contacted if other researchers would like to use this data or results in a subsequent analysis or publication

Dataset Abstract

The objective of this study was to use side-view digital photography to describe the structure and dynamics of natural forest stands in the context of the FunDiv Europe exploratory network. From April to December 2012, as well as April to December 2013 for some regions, time-series of digital images were recorded at each forest plot using commercially available digital camera units. Three regions of interest (ROI) representing the over-, mid- and under-storey layers of the forest plots were manually delineated for each image time-series. The image processing workflow produced a list of six key variables for each of the three ROIs though additional variables are also provided in this dataset. The six variables we suggest as key foci variables are: 1) Growing season length (days) from Green Cover, 2) Growing season onset from Green Cover (day of the year), 3) Growing season offset (day of the year) from Green Cover, 4) Mean Green Cover (%), 5) Mean ROI texture (Mean information gain; MIG), 6) Mean ROI anisotropy (MIG ratio).

Dataset Design

The sampling design follows that of the exploratory platform. Each plot from each region was sampled though some plots are missing from the dataset due to loss of equipment. "Sampling" means the acquisition of images. Specifically, time-series of digital images were recorded at each forest plot using commercially available digital camera units (PlantCam ™ timelapse camera, Model WSCA04-00106. Wingscapes, Alabaster, AL, USA), which capture repeat side-view digital images at a programmed time interval. Within 5 m from the southern side of each forest plot, one camera was installed on a large (DBH > 10cm) and visually healthy tree. The camera was installed at a height of 2m on the tree side and oriented towards the magnetic North. The camera was fastened to the tree securely and the view angle adjusted parallel to the ground slope. Each camera was programmed to record a single image every 3 hours during daylight (9 am to 5 pm). The sampling period started in early April and images were acquired until late November - December.

Spatial Extent

This dataset covers all exploratory regions with the exception of Romania which is excluded due to loss of equipment and data. Data for one to six plots are missing from each region due to loss of equipment and data. Locations include all plots for the exploratory regions of Finland, Germany, Poland, Spain and Italy.

Published

NA

Temporal Extent

This data is derived from image analysis applied to a time series of images collected during the 2012 and 2013 growing seasosn (approx. April - December depending on region). For the regions of Germany, Poland, Spain and Italy images were acquired during the 2012 growing season, while Finland images were acquired during the 2013 growing season. The German plots were also re-sampled (i.e., images acquired) during the 2013 growing season and, therefor, Germany has two time-series or phenologies (2012 & 2013 seasons). For each plot and each acquisition year, Three images were captured daily for the entire growing season/sampling period. However, the data here represents analysis performed on only images acquired at the 12:00 pm (site local time) acquisition interval. The analysis was performed January - May, 2014.

Measurement Circumstances

These data represent preliminary analysis. To date, no image correction or equalization was done across the image time-series. Images, and thus image metrics, can be influenced by light and weather conditions. These extternal influences particularly apply to the structural image metrics or variables. Image metrics based on greenness indices are less influenced by light conditions. Further analysis will explore image equalization techniques in an attempt to standardize image intensity across an image time-series. As mentioned some cameras were lost in certain plots and thus so too their image data. These plots are not included.

Data Analysis

Three regions of interest (ROI) representing the over-, mid- and under-storey layers of the forest plots were manually delineated for each image time-series. For each ROI in an image time-series, growing season onset (green-up) and offset (green-down) dates were estimated using two image greenness indices that we term "Percent Green" and "Green Cover" (Meyer and Neto, 2008; Sonnentag et al., 2012). The two greenness metrics are somewhat redundant though operate to estimate greenness in slightly different manners. For further details on differentiating the two greenness metrics please see the povided references or contact the data authors. We suggest any users of this data first use the "Green Cover" metric though one can use and compare both. For both greenness metrics, dates of maximum greenness increase (green onset dates) and decrease (green offset dates) were obtained from the 1st and 2nd derivatives of the smoothed greenness time-series (e.g., Noormets, 2009). In addition, the minimum value, maximum value, mean and standard deviation of greenness values for the time-series were also calculated. Furthermore, differences in structural heterogeneity of light interception/reflection patterns for the different forest strata were quantified in the over-, mid- and under-storey image ROIs. Structural heterogeneity metrics of texture and anisotropy were calculated on grey-tone transformed images following the method proposed by Proulx et al. (2014). For each plot, structural heterogeneity metrics were calculated for all images taken during each growing season (i.e., the plot time series; typically May 1 to October 31 though some chronologies extend longer) and subsequently the maximum, minimum, mean and standard deviation values were calculated.Thus, the image processing workflow produced a list of 22 variables for each of the 3 ROIs, for a total of 66 image-derived values per plot. However, for a given ROI we suggest 6 key variables of focus for those wanting to use this dataset: 1) Green Cover Growing season length (days), 2) Green Cover Growing season onset (day of the year), 3) Green Cover Growing season offset (day of the year), 4) Mean Green Cover (%), 5) Mean ROI Texture (Mean information gain; MIG), 6) Mean ROI Anisotropy (MIG ratio). Image-derived values could not be calculated for all forest plots in the FunDiv exploratory network since nearly all cameras were stolen in one bioclimatic region (Romania) and a few other cameras failed in the other regions. Finally, the growing season length, onset and offset dates could not be calculated for time-series that did not present a clear seasonal pattern (i.e., sharp green-up and green-down trends). This situation occurred in ~5% of the forest plots depending on the ROI.

Data columns available in the raw data part of this dataset

PlotID
Unique plot id
Data group: Exploratory plot id
Values
FIN05
FIN01
FIN02
FIN03
FIN04
Year
Year of data acquisition; e.g., 2012; Datagroup description: Year
Data group: Year
Values
2013
2012
OverstoryROISize
Size of the region of interest (ROI) for the overstory portion of the image (pixels)
Unit: pixels
Data group: Structural complexity
Values
1028718
1002132
1004696
1049190
1031277
UnderstoryROISize
Size of the region of interest (ROI) for the understory portion of the image (pixels)
Unit: pixels
Data group: Structural complexity
Values
1026610
1045288
1013838
1027169
1038700
MidstoryROISize
Size of the region of interest (ROI) for the midstory portion of the image (pixels)
Unit: pixels
Data group: Structural complexity
Values
1014288
1007954
1012608
1003168
1031016
OverstoryGreenCoverSeason
Overstory growing season length (days) with Green Cover
Unit: days
Data group: Structural complexity
Keywords: phenology, growing season, overstory
Values
102
107
100
101
105
OverstoryGreenCoverOnset
Overstory green onset date (day of the year) with Green Cover
Unit: day
Data group: Structural complexity
Keywords: phenology, growing season, overstory
Values
104
105
103
102
101
OverstoryGreenCoverOffset
Overstory green offset date (day of the year) with Green Cover
Unit: day
Data group: Structural complexity
Keywords: phenology, growing season, overstory
Values
179
181
168
185
177
OverstoryGreenCoverHigh
Overstory Green Cover maximum value in the time-series (% of green pixels)
Unit: % green pixels
Data group: Structural complexity
Keywords: phenology, overstory, greenness
Values
127
132
130
125
133
OverstoryGreenCoverLow
Overstory Green Cover minimum value in the time-series (% of green pixels)
Unit: % green pixels
Data group: Structural complexity
Keywords: phenology, overstory, greenness
Values
122
105
124
103
104
OverstoryGreenCover_AVG
Overstory mean Green Cover across time-series (% of green pixels)
Unit: % green pixels
Data group: Structural complexity
Keywords: phenology, overstory, greenness
Values
0.028551069
0.030657486
0.015195144
0.025160253
0.028382173
OverstoryGreenCover_STD
Overstory standard deviation in Green Cover across time-series (% of green pixels)
Unit: % green pixels
Data group: Structural complexity
Keywords: phenology, overstory, greenness
Values
0.011578596
0.005100072
0.016420037
0.009558066
0.012876891
OverstoryPrctGreenSeason
Overstory growing season length (days) with Percent Green
Unit: days
Data group: Structural complexity
Keywords: phenology, growing season, overstory
Values
100
102
106
104
105
OverstoryPrctGreenOnset
Overstory green onset date (day of the year) with Percent Green
Unit: day
Data group: Structural complexity
Keywords: phenology, growing season, overstory
Values
104
105
102
101
103
OverstoryPrctGreenOffset
Overstory green offset date (day of the year) with Percent Green
Unit: day
Data group: Structural complexity
Keywords: phenology, growing season, overstory
Values
194
193
176
153
185
OverstoryPrctGreenHigh
Overstory Percent Green maximum value in the time-series (% of green pixels)
Unit: % green pixels
Data group: Structural complexity
Keywords: phenology, overstory, greenness
Values
124
119
123
121
122
OverstoryPrctGreenLow
Overstory Percent Green minimum value in the time-series (% of green pixels)
Unit: % green pixels
Data group: Structural complexity
Keywords: phenology, overstory, greenness
Values
128
104
188
103
102
OverstoryPrctGreen_AVG
Overstory mean Percent Green across time-series (% of green pixels)
Unit: % green pixels
Data group: Structural complexity
Keywords: phenology, overstory, greenness
Values
0.309317117
0.320785138
0.324954431
0.323360988
0.320696197
OverstoryPrctGreen_STD
Overstory standard deviation in Percent Green across time-series (% of green pixels)
Unit: % green pixels
Data group: Structural complexity
Keywords: phenology, overstory, greenness
Values
0.002287532
0.001470808
0.002108462
0.001216288
0.001930718
OverstoryIntTextureHigh
Overstory texture maximum value in the time-series (Mean information gain; MIG)
Unit: MIG
Data group: Structural complexity
Keywords: phenology, overstory, texture
Values
118
116
114
117
111
OverstoryIntTextureLow
Overstory texture minimum value in the time-series (Mean information gain; MIG)
Unit: MIG
Data group: Structural complexity
Keywords: phenology, overstory, texture
Values
122
125
102
104
103
OverstoryIntTexture_AVG
Overstory mean of texture across time-series (Mean information gain of greyscale; MIG)
Unit: MIG
Data group: Structural complexity
Keywords: phenology, overstory, texture
Values
0.191814305
0.145154426
0.180186215
0.18903646
0.190474439
OverstoryIntTexture_STD
Overstory standard deviation of texture across time-series (Mean information gain of greyscale; MIG)
Unit: MIG
Data group: Structural complexity
Keywords: phenology, overstory, texture
Values
0.008975979
0.009225014
0.008508495
0.007800481
0.010539565
OverstoryIntAnisotropyHigh
Overstory anisotropy maximum value in the time-series (MIG ratio; unitless)
Unit: MIG
Data group: Structural complexity
Keywords: phenology, overstory, anisotropy
Values
118
116
120
117
119
OverstoryIntAnisotropyLow
Overstory anisotropy minimum value in the time-series (MIG ratio; unitless)
Unit: MIG
Data group: Structural complexity
Keywords: phenology, overstory, anisotropy
Values
104
126
125
103
102
OverstoryIntAnisotropy_AVG
Overstory mean of anisotropy across time-series (MIG ratio; unitless)
Unit: unitless
Data group: Structural complexity
Keywords: phenology, overstory, anisotropy
Values
0.835743589
0.777094124
0.784903296
0.814279518
0.827470582
OverstoryIntAnisotropy_STD
Overstory standard deviation of anisotropy across time-series (MIG ratio; unitless)
Unit: unitless
Data group: Structural complexity
Keywords: phenology, overstory, anisotropy
Values
0.007231308
0.004948965
0.007049452
0.003796777
0.003884244
UnderstoryGreenCoverSeason
Understory growing season length (days) with Green Cover
Unit: days
Data group: Structural complexity
Keywords: phenology, growing season, Understory
Values
108
102
104
101
103
UnderstoryGreenCoverOnset
Understory green onset date (day of the year) with Green Cover
Unit: day
Data group: Structural complexity
Keywords: phenology, growing season, Understory
Values
104
102
100
103
101
UnderstoryGreenCoverOffset
Understory green offset date (day of the year) with Green Cover
Unit: day
Data group: Structural complexity
Keywords: phenology, growing season, Understory
Values
141
126
150
145
152
UnderstoryGreenCoverHigh
Understory Green Cover maximum value in the time-series (% of green pixels)
Unit: % green pixels
Data group: Structural complexity
Keywords: phenology, Understory, greenness
Values
127
129
130
128
125
UnderstoryGreenCoverLow
Understory Green Cover minimum value in the time-series (% of green pixels)
Unit: % green pixels
Data group: Structural complexity
Keywords: phenology, Understory, greenness
Values
128
103
127
126
125
UnderstoryGreenCover_AVG
Understory mean Green Cover across time-series (% of green pixels)
Unit: % green pixels
Data group: Structural complexity
Keywords: phenology, Understory, greenness
Values
0.005573043
0.009661242
0.004664399
0.010982035
0.008732192
UnderstoryGreenCover_STD
Understory standard deviation in Green Cover across time-series (% of green pixels)
Unit: % green pixels
Data group: Structural complexity
Keywords: phenology, Understory, greenness
Values
0.009317323
0.00547571
0.004432379
0.004007118
0.003215055
UnderstoryPrctGreenSeason
Understory growing season length (days) with Percent Green
Unit: days
Data group: Structural complexity
Keywords: phenology, growing season, Understory
Values
105
102
103
101
107
UnderstoryPrctGreenOnset
Understory green onset date (day of the year) with Percent Green
Unit: day
Data group: Structural complexity
Keywords: phenology, growing season, Understory
Values
105
104
102
101
103
UnderstoryPrctGreenOffset
Understory green offset date (day of the year) with Percent Green
Unit: day
Data group: Structural complexity
Keywords: phenology, growing season, Understory
Values
161
157
159
154
160
UnderstoryPrctGreenHigh
Understory Percent Green maximum value in the time-series (% of green pixels)
Unit: % green pixels
Data group: Structural complexity
Keywords: phenology, Understory, greenness
Values
122
126
116
127
124
UnderstoryPrctGreenLow
Understory Percent Green minimum value in the time-series (% of green pixels)
Unit: % green pixels
Data group: Structural complexity
Keywords: phenology, Understory, greenness
Values
103
125
127
126
116
UnderstoryPrctGreen_AVG
Understory mean Percent Green across time-series (% of green pixels)
Unit: % green pixels
Data group: Structural complexity
Keywords: phenology, Understory, greenness
Values
0.248017399
0.291975091
0.175610912
0.282627154
0.27370148
UnderstoryPrctGreen_STD
Understory standard deviation in Percent Green across time-series (% of green pixels)
Unit: % green pixels
Data group: Structural complexity
Keywords: phenology, Understory, greenness
Values
0.004537297
0.003952958
0.004294015
0.002949336
0.003741938
UnderstoryIntTextureHigh
Understory texture maximum value in the time-series (Mean information gain; MIG)
Unit: MIG
Data group: Structural complexity
Keywords: phenology, Understory, texture
Values
111
110
107
104
109
UnderstoryIntTextureLow
Understory texture minimum value in the time-series (Mean information gain; MIG)
Unit: MIG
Data group: Structural complexity
Keywords: phenology, Understory, texture
Values
128
129
130
124
119
UnderstoryIntTexture_AVG
Understory mean of texture across time-series (Mean information gain of greyscale; MIG)
Unit: MIG
Data group: Structural complexity
Keywords: phenology, Understory, texture
Values
0.170094781
0.175308262
0.172741861
0.166431233
0.141674207
UnderstoryIntTexture_STD
Understory standard deviation of texture across time-series (Mean information gain of greyscale; MIG)
Unit: MIG
Data group: Structural complexity
Keywords: phenology, Understory, texture
Values
0.007016671
0.008424295
0.008189648
0.009225014
0.00915902
UnderstoryIntAnisotropyHigh
Understory anisotropy maximum value in the time-series (MIG ratio; unitless)
Unit: MIG
Data group: Structural complexity
Keywords: phenology, Understory, anisotropy
Values
114
111
113
112
115
UnderstoryIntAnisotropyLow
Understory anisotropy minimum value in the time-series (MIG ratio; unitless)
Unit: MIG
Data group: Structural complexity
Keywords: phenology, Understory, anisotropy
Values
105
112
103
102
127
UnderstoryIntAnisotropy_AVG
Understory mean of anisotropy across time-series (MIG ratio; unitless)
Unit: unitless
Data group: Structural complexity
Keywords: phenology, Understory, anisotropy
Values
0.844797248
0.864253
0.78597791
0.852215028
0.89698049
UnderstoryIntAnisotropy_STD
Understory standard deviation of anisotropy across time-series (MIG ratio; unitless)
Unit: unitless
Data group: Structural complexity
Keywords: phenology, Understory, anisotropy
Values
0.00522892
0.008237707
0.009270104
0.006260784
0.009627778
MidstoryGreenCoverSeason
Midstory growing season length (days) with Green Cover
Unit: days
Data group: Structural complexity
Keywords: phenology, growing season, Midstory
Values
101
108
107
105
102
MidstoryGreenCoverOnset
Midstory green onset date (day of the year) with Green Cover
Unit: day
Data group: Structural complexity
Keywords: phenology, growing season, Midstory
Values
102
101
103
104
105
MidstoryGreenCoverOffset
Midstory green offset date (day of the year) with Green Cover
Unit: day
Data group: Structural complexity
Keywords: phenology, growing season, Midstory
Values
169
165
126
164
174
MidstoryGreenCoverHigh
Midstory Green Cover maximum value in the time-series (% of green pixels)
Unit: % green pixels
Data group: Structural complexity
Keywords: phenology, Midstory, greenness
Values
124
134
133
131
132
MidstoryGreenCoverLow
Midstory Green Cover minimum value in the time-series (% of green pixels)
Unit: % green pixels
Data group: Structural complexity
Keywords: phenology, Midstory, greenness
Values
102
105
103
128
165
MidstoryGreenCover_AVG
Midstory mean Green Cover across time-series (% of green pixels)
Unit: % green pixels
Data group: Structural complexity
Keywords: phenology, Midstory, greenness
Values
0.01397647
0.036772136
0.040389407
0.019263595
0.038008049
MidstoryGreenCover_STD
Midstory standard deviation in Green Cover across time-series (% of green pixels)
Unit: % green pixels
Data group: Structural complexity
Keywords: phenology, Midstory, greenness
Values
0.015296274
0.016355177
0.015801525
0.014898988
0.009278557
MidstoryPrctGreenSeason
Midstory growing season length (days) with Percent Green
Unit: days
Data group: Structural complexity
Keywords: phenology, growing season, Midstory
Values
103
104
105
101
102
MidstoryPrctGreenOnset
Midstory green onset date (day of the year) with Percent Green
Unit: day
Data group: Structural complexity
Keywords: phenology, growing season, Midstory
Values
105
101
102
103
104
MidstoryPrctGreenOffset
Midstory green offset date (day of the year) with Percent Green
Unit: day
Data group: Structural complexity
Keywords: phenology, growing season, Midstory
Values
176
174
183
173
172
MidstoryPrctGreenHigh
Midstory Percent Green maximum value in the time-series (% of green pixels)
Unit: % green pixels
Data group: Structural complexity
Keywords: phenology, Midstory, greenness
Values
121
117
113
119
122
MidstoryPrctGreenLow
Midstory Percent Green minimum value in the time-series (% of green pixels)
Unit: % green pixels
Data group: Structural complexity
Keywords: phenology, Midstory, greenness
Values
127
126
104
103
125
MidstoryPrctGreen_AVG
Midstory mean Percent Green across time-series (% of green pixels)
Unit: % green pixels
Data group: Structural complexity
Keywords: phenology, Midstory, greenness
Values
0.309897193
0.312865746
0.303930257
0.29647768
0.290403055
MidstoryPrctGreen_STD
Midstory standard deviation in Percent Green across time-series (% of green pixels)
Unit: % green pixels
Data group: Structural complexity
Keywords: phenology, Midstory, greenness
Values
0.004078336
0.002736857
0.003871909
0.003065859
0.002815088
MidstoryIntTextureHigh
Midstory texture maximum value in the time-series (Mean information gain; MIG)
Unit: MIG
Data group: Structural complexity
Keywords: phenology, Midstory, texture
Values
117
115
118
107
116
MidstoryIntTextureLow
Midstory texture minimum value in the time-series (Mean information gain; MIG)
Unit: MIG
Data group: Structural complexity
Keywords: phenology, Midstory, texture
Values
102
103
148
127
160
MidstoryIntTexture_AVG
Midstory mean of texture across time-series (Mean information gain of greyscale; MIG)
Unit: MIG
Data group: Structural complexity
Keywords: phenology, Midstory, texture
Values
0.140842051
0.184641806
0.181803669
0.175503337
0.187737493
MidstoryIntTexture_STD
Midstory standard deviation of texture across time-series (Mean information gain of greyscale; MIG)
Unit: MIG
Data group: Structural complexity
Keywords: phenology, Midstory, texture
Values
0.00778399
0.005907508
0.008751465
0.006259217
0.008347062
MidstoryIntAnisotropyHigh
Midstory anisotropy maximum value in the time-series (MIG ratio; unitless)
Unit: MIG
Data group: Structural complexity
Keywords: phenology, Midstory, anisotropy
Values
115
111
112
113
116
MidstoryIntAnisotropyLow
Midstory anisotropy minimum value in the time-series (MIG ratio; unitless)
Unit: MIG
Data group: Structural complexity
Keywords: phenology, Midstory, anisotropy
Values
152
102
128
101
153
MidstoryIntAnisotropy_AVG
Midstory mean of anisotropy across time-series (MIG ratio; unitless)
Unit: unitless
Data group: Structural complexity
Keywords: phenology, Midstory, anisotropy
Values
0.794275452
0.791027495
0.787718874
0.747218691
0.795957338
MidstoryIntAnisotropy_STD
Midstory standard deviation of anisotropy across time-series (MIG ratio; unitless)
Unit: unitless
Data group: Structural complexity
Keywords: phenology, Midstory, anisotropy
Values
0.004880869
0.009674937
0.009750512
0.010316085
0.006022207