tslearn: A Python repository from tcrasset

tslearn

The machine learning toolkit for time series analysis in Python

Section	Description
Installation	Installing the dependencies and tslearn
Getting started	A quick introduction on how to use tslearn
Available features	An extensive overview of tslearn's functionalities
Documentation	A link to our API reference and a gallery of examples
Contributing	A guide for heroes willing to contribute
Citation	A citation for tslearn for scholarly articles

Installation

There are different alternatives to install tslearn:

PyPi: python -m pip install tslearn
Conda: conda install -c conda-forge tslearn
Git: python -m pip install https://github.com/tslearn-team/tslearn/archive/master.zip

In order for the installation to be successful, the required dependencies must be installed. For a more detailed guide on how to install tslearn, please see the Documentation.

Getting started

1. Getting the data in the right format

tslearn expects a time series dataset to be formatted as a 3D numpy array. The three dimensions correspond to the number of time series, the number of measurements per time series and the number of dimensions respectively (n_ts, max_sz, d). In order to get the data in the right format, different solutions exist:

It should further be noted that tslearn supports variable-length timeseries.

>>> from tslearn.utils import to_time_series_dataset
>>> my_first_time_series = [1, 3, 4, 2]
>>> my_second_time_series = [1, 2, 4, 2]
>>> my_third_time_series = [1, 2, 4, 2, 2]
>>> X = to_time_series_dataset([my_first_time_series,
                                my_second_time_series,
                                my_third_time_series])
>>> y = [0, 1, 1]

2. Data preprocessing and transformations

Optionally, tslearn has several utilities to preprocess the data. In order to facilitate the convergence of different algorithms, you can scale time series. Alternatively, in order to speed up training times, one can resample the data or apply a piece-wise transformation.

>>> from tslearn.preprocessing import TimeSeriesScalerMinMax
>>> X_scaled = TimeSeriesScalerMinMax().fit_transform(X)
>>> print(X_scaled)
[[[0.] [0.667] [1.] [0.333] [nan]]
 [[0.] [0.333] [1.] [0.333] [nan]]
 [[0.] [0.333] [1.] [0.333] [0.333]]]

3. Training a model

After getting the data in the right format, a model can be trained. Depending on the use case, tslearn supports different tasks: classification, clustering and regression. For an extensive overview of possibilities, check out our gallery of examples.

>>> from tslearn.neighbors import KNeighborsTimeSeriesClassifier
>>> knn = KNeighborsTimeSeriesClassifier(n_neighbors=1)
>>> knn.fit(X_scaled, y)
>>> print(knn.predict(X_scaled))
[0 1 1]

As can be seen, the models in tslearn follow the same API as those of the well-known scikit-learn. Moreover, they are fully compatible with it, allowing to use different scikit-learn utilities such as hyper-parameter tuning and pipelines.

4. More analyses

tslearn further allows to perform all different types of analysis. Examples include calculating barycenters of a group of time series or calculate the distances between time series using a variety of distance metrics.

Available features

data	processing	clustering	classification	regression	metrics
UCR Datasets	Scaling	TimeSeriesKMeans	KNN Classifier	KNN Regressor	Dynamic Time Warping
Generators	Piecewise	KShape	TimeSeriesSVC	TimeSeriesSVR	Global Alignment Kernel
Conversion(1, 2)		GAKKmeans	ShapeletModel		Barycenters

Documentation

The documentation, including a gallery of examples, is hosted at readthedocs.

Contributing

If you would like to contribute to tslearn, please have a look at our contribution guidelines. A list of interesting TODO's can be found here. If you want other ML methods for time series to be added to this TODO list, do not hesitate to open an issue!

Referencing tslearn

If you use tslearn in a scientific publication, we would appreciate citations:

@misc{tslearn,
      title={tslearn: A machine learning toolkit dedicated to time-series
             data},
      author={Romain Tavenard and Johann Faouzi and Gilles Vandewiele and
              Felix Divo and Guillaume Androz and Chester Holtz and Marie
              Payne and Roman Yurchak and Marc Ru{\ss}wurm and Kushal
              Kolar and Eli Woods},
      year={2017},
      note={\url{https://github.com/tslearn-team/tslearn}}
}

Acknowledgments

Authors would like to thank Mathieu Blondel for providing code for Kernel k-means and Soft-DTW.

tcrasset/tslearn