Analyse and Interpret Time Series Features.

theftdlc

Tools for Analysing and Interpreting Time Series Features

Installation

Coming to CRAN soon!

You can install the development version of theftdlc from GitHub using the following:

devtools::install_github("hendersontrent/theftdlc")

General purpose

The theft package for R facilitates user-friendly access to a structured analytical workflow for the extraction of time-series features from six different feature sets (or a set of user-supplied features): "catch22", "feasts", "Kats", "tsfeatures", "tsfresh", and "TSFEL".

theftdlc extends this feature-based ecosystem by providing a suite of functions for analysing, interpreting, and visualising time-series features calculated using theft. Functionality including data quality assessments and normalisation methods, low dimensional projections (linear and nonlinear), data matrix and feature distribution visualisations, time-series classification machine learning procedures, statistical hypothesis testing, and various other statistical and graphical tools.

A high-level overview of how the theft ecosystem for R is typically accessed by users is shown below. Many more functions and options for customisation are available within the packages.

What’s in a name?

theftdlc means ‘downloadable content’ (DLC) for theft—just like you get DLCs and expansions for video games.

Quick tour

theft and theftdlc combine to create an intuitive and efficient tidy feature-based workflow. Here is an example of a single code chunk that calculates features using catch22 and a custom set of mean and standard deviation, and projects the feature space into an interpretable two-dimensional space using principal components analysis:

library(dplyr)
library(theft)
library(theftdlc)

calculate_features(data = theft::simData, 
                   group_var = "process", 
                   feature_set = "catch22",
                   features = list("mean" = mean, "sd" = sd)) %>%
  project(norm_method = "RobustSigmoid",
          unit_int = TRUE,
          low_dim_method = "PCA") %>%
  plot()

In that example, calculate_features comes from theft, while project and the plot generic come from theftdlc.

Similarly, we can perform time-series classification using a similar simple workflow to compare the performance of catch22 against our custom set of the first two moments of the distribution:

calculate_features(data = theft::simData, 
                   group_var = "process", 
                   feature_set = "catch22",
                   features = list("mean" = mean, "sd" = sd)) %>%
  classify(by_set = TRUE,
           n_resamples = 5,
           use_null = TRUE) %>%
  compare_features(by_set = TRUE,
                   hypothesis = "null") %>%
  head()

                 hypothesis   feature_set   metric  set_mean null_mean
1  All features != own null  All features accuracy 0.8400000 0.1688889
2 User-supplied != own null User-supplied accuracy 0.7066667 0.1111111
3       catch22 != own null       catch22 accuracy 0.7066667 0.1600000
  t_statistic      p.value
1    9.089132 0.0004062310
2    5.512023 0.0026431488
3    7.363817 0.0009059762

In this example, classify and compare_features come from theftdlc.

Please see the vignette for more information and the full functionality of both packages.

Citation

If you use theft or theftdlc in your own work, please cite both the paper:

T. Henderson and Ben D. Fulcher. Feature-Based Time-Series Analysis in R using the theft Package. arXiv, (2022).

and the software:

To cite package 'theft' in publications use:

  Trent Henderson (2024). theft: Tools for Handling Extraction of
  Features from Time Series. R package version 0.6.1.
  https://hendersontrent.github.io/theft/

A BibTeX entry for LaTeX users is

  @Manual{,
    title = {theft: Tools for Handling Extraction of Features from Time Series},
    author = {Trent Henderson},
    year = {2024},
    note = {R package version 0.6.1},
    url = {https://hendersontrent.github.io/theft/},
  }


To cite package 'theftdlc' in publications use:

  Trent Henderson (2024). theftdlc: Tools for Analysing and
  Interpreting Time Series Features. R package version 0.1.0.
  https://hendersontrent.github.io/theftdlc/

A BibTeX entry for LaTeX users is

  @Manual{,
    title = {theftdlc: Tools for Analysing and Interpreting Time Series Features},
    author = {Trent Henderson},
    year = {2024},
    note = {R package version 0.1.0},
    url = {https://hendersontrent.github.io/theftdlc/},
  }