GeoWaVe Cytometry Benchmark Data

Contained within this folder are six benchmark datasets (Levine13, Levine32, Samusik, Sepsis, and PD) used for the evaluation of the GeoWaVe ensemble clustering algorithm, part of the cytocluster (https://github.com/burtonrj/CytoCluster) package.

The data are compensated, arc-sine transformed, and debris and dead cells removed. See manuscript for details: https://doi.org/10.1101/2022.06.30.496829

Each dataset is available as a CSV file and includes two additional columns: UMAP1 and UMAP2. The UMAP columns contain embeddings generated using UMAP (2 components and n_neighbours=30) and were used for visualisation purposes. The column 'population' contains the original population labels generated using manual gating.