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R/rucrdtw-package.r

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#' rucrdtw: Fast time series subsequence search in R
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#'
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#' @description Dynamic Time Warping (DTW) methods provide algorithms to optimally map a given time series onto all or part of another time series. The remaining cumulative distance between the series after the alignement is a useful distance metric in time series data mining applications for tasks such as classification, clustering, and anomaly detection. A broad suite of DTW algorithms is implemented in R in the \strong{dtw} package (Giorgino 2009).
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#' @description Dynamic Time Warping (DTW) methods provide algorithms to optimally map a given time series onto all or part of another time series. The remaining cumulative distance between the series after the alignment is a useful distance metric in time series data mining applications for tasks such as classification, clustering, and anomaly detection. A broad suite of DTW algorithms is implemented in R in the \strong{dtw} package (Giorgino 2009).
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#'
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#' Calculating a DTW alignment is computationally relatively expensive, and as a consequence DTW is often a bottleneck in time series data mining applications. The UCR Suite (Rakthanmanon et al. 2012) provides a highly optimized algorithm for best-match subsequence searches that avoids unnecessary distance computations and thereby enables fast DTW and Euclidean Distance queries even in data sets containing trillions of observations.
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man/rucrdtw.Rd

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paper.md

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# Summary
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Dynamic Time Warping (DTW) methods provide algorithms to optimally map a given time series onto all or part of another time series [@berndt1994using]. The remaining cumulative distance between the series after the alignement is a useful distance metric in time series data mining applications for tasks such as classification, clustering, and anomaly detection.
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Dynamic Time Warping (DTW) methods provide algorithms to optimally map a given time series onto all or part of another time series [@berndt1994using]. The remaining cumulative distance between the series after the alignment is a useful distance metric in time series data mining applications for tasks such as classification, clustering, and anomaly detection.
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Calculating a DTW alignment is computationally relatively expensive, and as a consequence DTW is often a bottleneck in time series data mining applications. The [UCR Suite](http://www.cs.ucr.edu/~eamonn/UCRsuite.html) [@rakthanmanon2012searching] provides a highly optimized algorithm for best-match subsequence searches that avoids unnecessary distance computations and thereby enables fast DTW and Euclidean Distance queries even in data sets containing trillions of observations.
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vignettes/using_rucrdtw.Rmd

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## Introduction
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Dynamic Time Warping (DTW) methods provide algorithms to optimally map a given time series onto all or part of another time series [@berndt1994using]. The remaining cumulative distance between the series after the alignement is a useful distance metric in time series data mining applications for tasks such as classification, clustering, and anomaly detection.
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Dynamic Time Warping (DTW) methods provide algorithms to optimally map a given time series onto all or part of another time series [@berndt1994using]. The remaining cumulative distance between the series after the alignment is a useful distance metric in time series data mining applications for tasks such as classification, clustering, and anomaly detection.
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Calculating a DTW alignment is computationally relatively expensive, and as a consequence DTW is often a bottleneck in time series data mining applications. The [UCR Suite](http://www.cs.ucr.edu/~eamonn/UCRsuite.html) [@rakthanmanon2012searching] provides a highly optimized algorithm for best-match subsequence searches that avoids unnecessary distance computations and thereby enables fast DTW and Euclidean Distance queries even in data sets containing trillions of observations.
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```
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## Comparison with a naive DTW sub-sequence search
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We can compare the speed-up achived with the UCR algorithm by comparing it to a naive sliding-window comparison with the `dtw` function from the [`dtw` package](https://CRAN.R-project.org/package=dtw) [@giorgino2009computing]. We create another time series and load `dtw`.
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We can compare the speed-up achieved with the UCR algorithm by comparing it to a naive sliding-window comparison with the `dtw` function from the [`dtw` package](https://CRAN.R-project.org/package=dtw) [@giorgino2009computing]. We create another time series and load `dtw`.
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```{r dtw-comparison, message=FALSE}
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set.seed(123)

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