Anomaly Detection in Time Series with Triadic Motif Fields and Application in Atrial Fibrillation ECG Classification
Author: Yadong Zhang and Xin Chen
Paper:
Online demo:
| Module | Path | Note | Default Settings |
|---|---|---|---|
| Basic | 1. lib 2. data 3. model | 1. Basic functions of the project. 2. Dataset processing. 3. Saved tail model weights. | 1. - 2. no filter, z-normalization 3. MLP model |
| Classification | 1. extractor 2. classifier | 1. Features extraction of TMF images based on transfer learning. 2. Feature vectors classification to AF and non-AF probabilities. | 1. VGG16, map-reduce use 10 nodes and 5 mpisize.2. - |
| Evaluation | 1. length_effect | 1. Evaluate the trained model on varying-length ECG signals. | 1. VGG16-MLP, map-reduce use 10 nodes and 5 mpisize. |
| App | 1. pyQT app 2. bokeh app | 1. Local app for classification and interpretation. 2. Web server for interpretation. | VGG16-MLP |
extractor and length_effect are parallelized on the linux clustering. (map-reduce)
.py: main code..sh: script for single submission to the pbs queue.map*.py: map the tasks to multi-nodes and mpi.reduce*.py: collect the results from the finished tasks.
| Features | Classification | Visualization | Interactive | Remote | Local |
|---|---|---|---|---|---|
| pyQT app | ✔️ | ✔️ | ✔️ | ❌ | ✔️ |
| bokeh app | ❌ (available in future) | ✔️ | ✔️ | ✔️ | ✔️ |
- Start page (click
start)- Start button
- Process bar & status
- Main page (from top to bottom)
- Time series with label
- Symmetrized Grad-CAM of AF and its predicted probability
- Symmetrized Grad-CAM of non-AF and its predicted probability
- Sliders of
time indexanddelayto adjust the triadic time series motifs- Triad (red) in time series is corresponding to the cross (white) in two Symmetrized Grad-CAM images
- The text with red background indicates the predicted type.
Python 3.6:
matplotlib mpi4py==3.0.3 numba==0.50.1 scikit-learn==0.23.0 scipy==1.5.2 tensorflow==1.14.0 opencv-python tqdm PyQT5 Cite our work with:
@misc{zhang2020anomaly, title={Anomaly Detection in Time Series with Triadic Motif Fields and Application in Atrial Fibrillation ECG Classification}, author={Yadong Zhang and Xin Chen}, year={2020}, eprint={2012.04936}, archivePrefix={arXiv}, primaryClass={cs.LG} }