R: Longest Common Subsequence distance for Real Sequences.

LCSSDistance {TSdist} | R Documentation

## Longest Common Subsequence distance for Real Sequences.

### Description

Computes the Longest Common Subsequence distance between a pair of numeric time series.

### Usage

    LCSSDistance(x, y, epsilon, sigma)

### Arguments

`x` | Numeric vector containing the first time series.
`y` | Numeric vector containing the second time series.
`epsilon` | A positive threshold value that defines the distance.
`sigma` | If desired, a Sakoe-Chiba windowing contraint can be added by specifying a positive integer representing the window size.

### Details

The Longest Common Subsequence for two real sequences is computed.

For this purpose, the distances between the points of `x` and `y` are reduced to 0 or 1. If the Euclidean distance between two points x_i and y_j is smaller than `epsilon` they are considered equal and their distance is reduced to 0. In the opposite case, the distance between them is represented with a value of 1.

Once the distance matrix is defined in this manner, the maximum common subsequence is seeked. Of course, as in other Edit Based Distances, gaps or unmatched regions are permitted and they are penalized with a value proportional to their length.

Based on its definition, the length of series `x` and `y` may be different.

If desired, a temporal constraint may be added to the LCSS distance. In this package, only the most basic windowing function, introduced by H.Sakoe and S.Chiba (1978), is implemented. This function sets a band around the main diagonal of the distance matrix and avoids the matching of the points that are farther in time than a specified σ.

The size of the window must be a positive integer value. Furthermore, the following condition must be fulfilled:

|length(x)-length(y)| < sigma

### Value

`d` | The computed distance between the pair of series.

### Author(s)

Usue Mori, Alexander Mendiburu, Jose A. Lozano.

### References

Vlachos, M., Kollios, G., & Gunopulos, D. (2002). Discovering similar multidimensional trajectories. In Proceedings 18th International Conference on Data Engineering (pp. 673-684). IEEE Comput. Soc. doi:10.1109/ICDE.2002.994784

Chen, L., & Ng, R. (2004). On The Marriage of Lp-norms and Edit Distance. In Proceedings of the Thirtieth International Conference on Very Large Data Bases (pp. 792–803).

Cuturi, M. (2011). Fast Global Alignment Kernels. In Proceedings of the 28th International Conference on Machine Learning (pp. 929–936).

Gaidon, A., Harchaoui, Z., & Schmid, C. (2011). A time series kernel for action recognition. In BMVC 2011 - British Machine Vision Conference (pp. 63.1–63.11).

Marteau, P.-F., & Gibet, S. (2014). On Recursive Edit Distance Kernels With Applications To Time Series Classification. IEEE Transactions on Neural Networks and Learning Systems, PP(6), 1–13.

Lei, H., & Sun, B. (2007). A Study on the Dynamic Time Warping in Kernel Machines. In 2007 Third International IEEE Conference on Signal-Image Technologies and Internet-Based System (pp. 839–845).

Pree, H., Herwig, B., Gruber, T., Sick, B., David, K., & Lukowicz, P. (2014). On general purpose time series similarity measures and their use as kernel functions in support vector machines. Information Sciences, 281, 478–495.

### See Also

To calculate this distance measure using `ts`, `zoo` or `xts` objects see `TSDistances`. To calculate distance matrices of time series databases using this measure see `TSDatabaseDistances`.

### Examples

    # The objects example.series3 and example.series4 are two
    # numeric series of length 100 and 120 contained in the TSdist
    # package.

    data(example.series3)
    data(example.series4)

    # For information on their generation and shape see
    # help page of example.series.

    help(example.series)

    # Calculate the LCSS distance for two series of different length
    # with no windowing constraint:

    LCSSDistance(example.series3, example.series4, epsilon=0.1)

    # Calculate the LCSS distance for two series of different length
    # with a window of size 30:

    LCSSDistance(example.series3, example.series4, epsilon=0.1, sigma=30)

[Package TSdist version 3.6 Index]