LPWC: Lag Penalized Weighted Correlation for Time Series Clustering

Authors: Thevaa Chandereng and Anthony Gitter

Overview

Lag Penalized Weighted Correlation (LPWC) is a method for clustering short time series data. It is designed to identify groups of biological entities (for example, genes or phosphosites) that exhibit the same pattern of activity changes over time. LPWC allows lags to incorporate delayed responses in the biological data. For example, two genes may have similar expression changes over time, but one initiates those changes 5 minutes after the other. LPWC also supports irregular time intervals between time points collected in biological data.

Installation

The first major release of LPWC will be added to CRAN. Until then, the easiest way to install LPWC is as follows:

devtools::install_github("gitter-lab/LPWC")

Usage

See the vignette for usage instructions.

Reference

If you use LPWC, please cite

Lag Penalized Weighted Correlation for Time Series Clustering. Thevaa Chandereng, Anthony Gitter. bioRxiv 2018. doi:10.1101/292615

License

LPWC is available under the open source MIT license.