Slope Entropy: A New Time Series Complexity Estimator Based on Both Symbolic Patterns and Amplitude Information
Abstract
:1. Introduction
2. Materials and Methods
2.1. Sample Entropy
2.2. Permutation Entropy
2.3. Slope Entropy
- If , the symbol is .
- If and , below the angle and above the 0 region when , the symbol is .
- In the vicinity of the 0 difference, when , the symbol assigned is 0.
- and , above the angle, and below the 0 region when , the symbol is .
- If , the symbol is .
Algorithm 1 Slope Entropy (SlopEn) Algorithm | |
Input: Time series , embedded dimension , length , , Initialisation: SlopEn , slope pattern counter vector , slope patterns relative frequency vector , list of slope patterns found | |
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Output: SlopEn ▹ Return result |
2.4. Experimental Dataset
- Random records. There is a clear synthetic case where PE failed to find differences between two classes: random time series with Gaussian or uniform amplitude distributions. This is a representative example of what happens when classes under analysis have the same temporal correlations but differ in amplitude: PE discriminating power gets lost [42]. A dataset of this case was included in the experiments in order to find out if SlopEn was capable of overcoming this known weakness of PE. Two classes were generated using Gaussian or uniform amplitude distributions, with 100 records each, with a length of 5000 samples. An example of records from each class is shown in Figure 2. This dataset will be referred to in the paper as the RANDOM dataset.
- Electroencephalographic records (EEGs) are the focus of many studies using entropy measures [43,44,45]. They have been used for a variety of purposes, such as to assess the mental status of a subject, driver’s fatigue, depth of anaesthesia, to detect a neurological disorder, or to predict the onset of epileptic seizures. There is also a great public availability of EEG records. For its good results using PE and SampEn in previous works, and due to the fact that it is probably the most widely known and analysed EEG database, we chose the University of Bonn EEG database [46]. There are five record classes in this database, but we only used the seizure–free and seizure–included records of classes D and E, respectively (100 records each one, uniform length of 4096 samples), easily separable, in principle. An example of class D record is plotted in Figure 3a, and in Figure 3b for class E.
- Another type of biomedical records extensively analysed using non–linear methods are series of time durations between consecutive R–waves in the electrocardiogram (ECG), or RR intervals [47,48,49]. We chose a publicly available RR database from the PhysioBank [50], the well known Fantasia database [51]. This database contains 20 young (21–34 years old) and 20 elderly (68–85 years old) healthy subjects data whose ECG signal was recorded during 120 min while in continuous supine resting. Examples of records from the elderly and young population are shown in Figure 4a,b, respectively.
- Entropy measures are also very popular in other time series domains, beyond the very successful one of biomedical records. Along this line, we looked for other publicly available datasets featuring a complete different kind of time series, and we found the varied and diverse repository at www.timeseriesclassification.com [52]. Within this repository, we chose two classes of data from the Personalised Retrofit Decision Support Tools for UK Homes Using Smart Home Technology (REFIT) project [53]. The first class contains data related to aggregate usage of electricity (Figure 5a), and the second one to aggregate usage of electricity of some specific home appliances (Figure 5b). This dataset contains 20 records from each class, with a uniform length of 1022 samples. We used this dataset in a previous study [33] where PE was unable to find significant differences between the two classes. Therefore, this should be considered a difficult dataset for entropy measures based only on ordinal patterns. We will refer to this dataset across the paper as the ENERGY dataset.
- The scientific and medical interest on Electromyograms (EMGs) and entropy measures is raising due to the recent availability of inexpensive continuous portable monitoring devices and the insight they provide into a number of important pathologies and motor disorders. They have been used to assess Parkinson’s disease [54], the neuromuscular impact of strokes [55], and muscular performance [56,57], to name just a few. The well–known site of Physionet [50] provides examples of EMGs, which we have used in previous classification studies, easily separable [22]. From three very long records of healthy, myopathy and neuropathy patients, we created three datasets by extracting non–overlapping epochs of 5000 samples. As a result, this dataset contains 10 healthy 5000 samples records (class 0), 22 myopathy 5000 samples records (class 1), and 29 neuropathy 5000 samples records (class 2). Examples of each class are shown in Figure 6a–c, respectively. This dataset will be referred to as the EMG dataset.
3. Experiments and Results
3.1. Classification Accuracy Tests
3.2. Embedded Dimension Influence Tests
3.3. Length Influence Tests
3.4. Noise Influence Tests
3.5. Embedded Delay Influence Tests
3.6. SlopEn Parameters Influence Tests
4. Discussion
- Accuracy is a kind of average between sensitivity and specificity, and a higher accuracy does not ensure significance because it can be the result of an unbalanced average. In this case, with a length of 100 samples, sensitivity was 0.51, and specificity 0.80, the average 0.72 was not significant because despite its high value, it came from a very low sensitivity. The same average for another test was achieved with a sensitivity of 0.80, and specificity of 0.68, but in this case, it was statistically significant. For length 150, the sensitivity was 1 and the specificity 0.57, significant for an accuracy of 0.66 but borderline.
- There are many methods for equal mean hypothesis testing, each one with its strengths and weaknesses [62]. We used the Bootstrap method, since no assumptions about the input data have to be made [63]. However, the size and distribution of the data may influence its results, mainly when significance is borderline. For example, in the previous 0.72 and 0.66 example, the test prioritised specificity over sensitivity due to the size differences of the input classes, 10 and 29, respectively.
- Rejecting the equal hypothesis is not a demonstration that it is completely false, or the other way round. Again, this is specially true in borderline cases where a minor random change can completely reverse the results.
- There are many factors than can influence the differences between time series. They are usually considered stationary, but in reality, they might exhibit some temporal changes. For example, border effects are quite common in biomedical records [14], and this impacts the results in a length influence analysis. Other well–known effects are the stochastic resonance [64,65], whereby more noise does not necessary imply less discriminating power, just the opposite. Regarding the temporal scale given by , a regular trend should not be expected in all cases because the classification performance depends on the information content of the temporal scale analysed. These scales could be completely independent in terms of this information content.
5. Conclusions
Funding
Conflicts of Interest
Appendix A. Example of SlopEn Computation
- Extract first subsequence from , . Compute the corresponding slope pattern, , since , and . Append pattern to the list of patterns found and initialise its counter to 1: .
- The next subsequence from is . Pattern . This pattern is not in . Append it, and initialise its counter to 1: .
- Subsequence . Pattern . This pattern is not in . Append it, and initialise its counter to 1: .
- Subsequence . Pattern . This pattern is not in . Append it, and initialise its counter to 1: .
- Subsequence . Pattern . This pattern is not in . Append it, and initialise its counter to 1: .
- Subsequence . Pattern . This pattern is not in . Append it, and initialise its counter to 1: .
- Subsequence . Pattern . This pattern is not in . Append it, and initialise its counter to 1: .
- Subsequence . Pattern . This pattern is not in . Append it, and initialise its counter to 1: .
- Subsequence . Pattern . This pattern is already in . Update its counter to 2: .
- Subsequence . Pattern . This pattern is not in . Append it, and initialise its counter to 1: .
- Subsequence . Pattern . This pattern is already in . Update its counter to 2: .
- Subsequence . Pattern . This pattern is already in . Update its counter to 2: .
- Subsequence . Pattern . This pattern is already in . Update its counter to 2: .
- Subsequence . Pattern . This pattern is not in . Append it, and initialise its counter to 1: .
- Subsequence . Pattern . This pattern is already in . Update its counter to 2: .
- Subsequence . Pattern . This pattern is not in . Append it, and initialise its counter to 1: .
- Subsequence . Pattern . This pattern is not in . Append it, and initialise its counter to 1: .
- Subsequence . Pattern . This pattern is already in . Update its counter to 2: .
- Subsequence . Pattern . This pattern is already in . Update its counter to 2: .
- Subsequence . Pattern . This pattern is already in . Update its counter to 3: .
- Subsequence . Pattern . This pattern is already in . Update its counter to 3: .
- Subsequence . Pattern . This pattern is already in . Update its counter to 4: .
- Subsequence . Pattern . This pattern is already in . Update its counter to 4: .
- Subsequence . Pattern . This pattern is not in . Append it, and initialise its counter to 1: .
- Subsequence . Pattern . This pattern is already in . Update its counter to 2: .
- Subsequence . Pattern . This pattern is already in . Update its counter to 5: .
- Subsequence . Pattern . This pattern is already in . Update its counter to 5: .
- Subsequence . Pattern . This pattern is already in . Update its counter to 6: .
- Subsequence . Pattern . This pattern is already in . Update its counter to 2: .
- Subsequence . Pattern . This pattern is not in . Append it, and initialise its counter to 1: .
- Subsequence . Pattern . This pattern is already in . Update its counter to 3: .
Appendix B. SlopEn Source Code Implementation
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Dataset | Accuracy | ||
---|---|---|---|
PE | SampEn | SlopEn | |
RANDOM | |||
ENERGY | |||
EEG | |||
RR | |||
EMG(0,1) | |||
EMG(0,2) | |||
EMG(1,2) |
1 | 3 | 6 | 5 | 5 | 1 | 2 | |
---|---|---|---|---|---|---|---|
1 | |||||||
RR | 0.70 | 0.70 | 0.82 | 0.85 | 0.70 | 0.70 | 0.70 |
EEG | 0.93 | 0.94 | 0.94 | 0.95 | 0.95 | 0.93 | 0.94 |
ENERGY | 0.90 | 0.87 | 0.57 | 0.60 | 0.62 | 0.90 | 0.92 |
EMG | 1,1,1 | 1,1,1 | 1,0.88,0.88 | 0.51,1,1 | 0.93,1,1 | 1,1,1 | 1,1,1 |
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Cuesta-Frau, D. Slope Entropy: A New Time Series Complexity Estimator Based on Both Symbolic Patterns and Amplitude Information. Entropy 2019, 21, 1167. https://doi.org/10.3390/e21121167
Cuesta-Frau D. Slope Entropy: A New Time Series Complexity Estimator Based on Both Symbolic Patterns and Amplitude Information. Entropy. 2019; 21(12):1167. https://doi.org/10.3390/e21121167
Chicago/Turabian StyleCuesta-Frau, David. 2019. "Slope Entropy: A New Time Series Complexity Estimator Based on Both Symbolic Patterns and Amplitude Information" Entropy 21, no. 12: 1167. https://doi.org/10.3390/e21121167
APA StyleCuesta-Frau, D. (2019). Slope Entropy: A New Time Series Complexity Estimator Based on Both Symbolic Patterns and Amplitude Information. Entropy, 21(12), 1167. https://doi.org/10.3390/e21121167