Fig. 5: Evaluation scenario 4.
From: Evaluating batch correction methods for image-based cell profiling
A Quantitative comparison of ten batch correction methods measuring batch effect removal (four batch correction metrics) and conservation of biological variance (six bio-metrics). Metrics are mean aggregated by category. Overall score is the weighted sum of aggregated batch correction and bio-metrics with 0.4 and 0.6 weights respectively. Visualization of integrated data colored by B Compound, C Laboratory, and D Microscope. Left-to-right layout reflects the methods’ descending order of performance. We selected 18 out of 302 compounds with replicates in different well positions to account for position effects that may cause profiles to look similar; the embeddings are the same across B-D but samples treated with compounds other than the selected 18 are not shown in B. Alphanumeric IDs denote positive controls. Source data are provided as a Source Data file.
