Submitted:
07 September 2023
Posted:
15 September 2023
Read the latest preprint version here
Abstract
Keywords:
1. Introduction
2. Methods and data
2.1. Training, evaluation and application datasets
2.2. Expert labeling process
2.3. Vegetation index time series
- Correct big jumps. The process of growing, and consequently the temporal pattern of greenness cannot have abrupt increases within a short period of time. Therefore, if the NDVI increases too quickly from time t to , a correction is required. In such cases, we assume NDVI at time t is affected negatively and therefore, we replace it via linear interpolation. In our study, we used a threshold of as the maximum NDVI growth allowed per day.
- Set negative NDVIs to zero. Negative NDVI values are an indication of lack of vegetation. In our scenario, the magnitude of such NDVIs are irrelevant. The negative NDVIs with high magnitudes adversely affect the NDVI-ratio method for classification (described in the Models section) and therefore the negative values are set to zero. Assume there is only one erroneous NDVI value that is negative and large in magnitude; e.g. -0.9, while all other values are positive. Then, the NDVI-ratio method which looks at normalized NDVI values will have a large value in its denominator and this single point affects the other points’ standardized values which can throw off the NDVI-ratio method. Under this scenario, the NDVI-ratio at the time of trough will be pushed up which leads to missing the harvest and re-planting in the middle of a growing season.
- Regularize the data. In this step, we regularize the data so that the data points are equidistant. In every 10-day time period, we pick the maximum NDVI as representative of those 10 days. The maximum is chosen because NDVI is negatively affected by poor atmospheric conditions (Kobayashi and Dye 2005; Liu and Huete 1995).
- Smooth the time series. As the last step, the SG filter is applied to time-series to smooth them even further. SG filtering is a local method that fits the data with a polynomial using the least square method. The parameters used in this study are 3 for the degree of polynomial and 7 for the size of moving window; i.e. a polynomial of degree 3 is fitted to 7 data points.
2.4. Models
-
NDVI-ratio method. One widely used approach for detecting the start of the season (SOS) and end of season (EOS) is the so-called NDVI-ratio method of White et al. (1997). NDVI-ratio is defined bywhere is NDVI at a given time, and are minimum and maximum of NDVI over a year, respectively. When this ratio crosses a given threshold, (Liu et al. 2020a; Zhang et al. 2021), then there is a SOS or EOS event. One pair of (SOS, EOS) event in a season is indicative of single cropping, and two pairs are indicative of double cropping. The following rules are applied under the NDVI-ratio method scenario.
- If the range of NDVI during the months of May through October (inclusively) is less than or equal to 0.3, then this field is labeled as single-cropped. This step was motivated by the low and flat time series of vegetation indices exhibited by orchards during visual inspection of figures.
- Determine SOS and EOS by -ratio method.
- If an SOS is detected for which there is no EOS in a given year, we nullify such SOS. Such event occurs for winter wheat for example. Similarly, if we detect one EOS over the year with no corresponding SOS, we drop the EOS and consider it as a single-cropping cycle. Example is winter wheat that is planted in the previous year.
- A growing cycle cannot be less than 40 days.
-
Machine learning models. We build three statistical learning models—SVM, RF, and kNN—as well as a DL model for classification. Given that the kNN model computes the distance between two vectors (NDVI at multiple points in time), the vectors need to be comparable. Planting dates may vary by field, and therefore, the measurement for distance should take the time shift into account. This is accomplished by using dynamic time warping as the distance measure for the kNN model. For deep learning (transfer learning) we have used the pre-trained VGG16 model provided by Keras and trained only the last layer.While the SVM, RF, and kNN models are provided with a vector of NDVI values as input, the DL model is provided with NDVI time-series images (time on the x axis and NDVI on the y axis) as inputs. This means that our approach to DL falls under the category of time-series image classification. While time-series data are not usually analyzed in this manner (Ismail Fawaz et al. 2020), it allows for nuances in the shape of the time series that other models may not capture, potentially resulting in better performance.Given that there are fewer double-cropped than single-cropped fields, we oversampled the double-cropped instances (the minority class) to address the class imbalance in the dataset. After oversampling, number of instances in the minority class was less than 50% of number of instances in majority class. Oversampling more than 50% led to lower performance. The problem, of course, is not the “imbalanced-ness”. The problem is that each class invades the space of the other class (Prati, Ronaldo C and Batista, Gustavo EAPA and Monard, Maria Carolina 2009; Azhar et al. 2023) and overdoing oversampling contributed to lowering the performance in our case. Please note that there is no oversampling in the NDVI-ratio method, since there is no training involved and the rules in NDVI-ratio method are pre-defined. These rules are applied to each individual field independent of other fields. In ML, however, all data points play a role in determining the shape of the classifier. Thus, oversampling is an attempt to tilt the weight in favor of the minority class.The training process was optimized using 5 fold cross-validation. The models are implemented using the Python (v3.9.16), scikit-learn package (v1.2.1) for RF, SVM, and kNN. For deep learning we have used TensorFlow (v2.9.1) and Keras (v2.9.0). For DTW metric dtaidistance v2.3.9 is used3.
3. Results
3.1. Accuracy statistics across methods
3.2. Fraction of double-cropped acres by crop
3.3. Regional summary and spatial distribution of double-cropped fields
4. Discussion
5. Conclusion
Author Contributions
Funding
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
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| 1 | McGuire and Waters are county Extension professionals from our region of interest and Beale initiated and currently manages WSDA’s agricultural land use mapping efforts. All experts have strong familiarity with fields, cropping practices, and growers in the region. |
| 2 | GEE datasets used in this study are LE07/C02/T1_L2 ( ), and LC08/C02/T1_L2 ( ). |
| 3 | Data processing and visualization is done using multiple Python packages. Scripts are accessible at https://github.com/HNoorazar/NASA_WWAO_DoubleCropping/tree/main. |





| county | Adams | Benton | Franklin | Grant | Walla Walla | Yakima |
| survey year | 2016 | 2016 | 2018 | 2017 | 2015 | 2018 |
| alfalfa hay | carrot | grass seed | pea, dry | sugar beet seed |
| alfalfa seed | carrot seed | hops | pea, green | sunflower |
| apple | cherry | market crops | pear | sunflower seed |
| apricot | corn seed | medicinal herb | pepper | timothy |
| asparagus | corn, field | mint | plum | triticale |
| barley | corn, sweet | mustard | poplar | triticale hay |
| barley hay | fallow | nectarine/peach | potato | watermelon |
| bean, dry | fallow, idle | oat hay | pumpkin | wheat |
| bean, green | fallow, tilled | onion | ryegrass seed | wheat fallow |
| blueberry | fescue seed | onion seed | sod farm | wildlife feed |
| bluegrass seed | grape, juice | orchard, unknown | squash | yellow mustard |
| buckwheat | grape, wine | pasture | sudangrass | |
| canola | grass hay | pea seed | sugar beet |
| actual | predicted | SVM | DL | kNN | RF | NDVI-ratio |
|---|---|---|---|---|---|---|
| single | single | 562 | 568 | 559 | 565 | 499 |
| double | double | 55 | 55 | 48 | 44 | 8 |
| single | double | 11 | 5 | 14 | 8 | 74 |
| double | single | 4 | 4 | 11 | 15 | 51 |
| # errors | 15 | 9 | 25 | 23 | 125 | |
| accuracy | 98% | 99% | 96% | 96% | 80% | |
| user acc. | 0.83 | 0.92 | 0.77 | 0.85 | 0.1 | |
| producer acc. | 0.93 | 0.93 | 0.81 | 0.75 | 0.14 | |
| kappa coeff. | 0.87 | 0.92 | 0.77 | 0.77 | 0.005 |
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