Exploring dimensionality reduction with classification of neural data.
The original dataset and article Sofroniew, Nicholas James et al. “Neural coding in barrel cortex during whisker-guided locomotion.” can be found on the author's GitHub repo.
- PCA applied to a waveform to cell type problem
- An autoencoder applied to a waveform to cell type problem
Cunningham, J., Yu, B. Dimensionality reduction for large-scale neural recordings. Nat Neurosci 17, 1500–1509 (2014). https://doi.org/10.1038/nn.3776
Paninski L, Cunningham JP. Neural data science: accelerating the experiment-analysis- theory cycle in large-scale neuroscience. Curr Opin Neurobiol. 2018 Jun;50:232-241. doi: 10.1016/j.conb.2018.04.007. PMID: 29738986.
Wu, Tong et al. “Deep Compressive Autoencoder for Action Potential Compression in Large-Scale Neural Recording.” Journal of Neural Engineering 15.6 (2018): n. pag. Journal of Neural Engineering. Web.
Ladjal, Saïd, Alasdair Newson, and Chi Hieu Pham. “A PCA-like Autoencoder.” arXiv 2 Apr. 2019: n. pag. Print.
Scree and cumulative explained variance plots
Hyperparameter grid search for Keras: