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. Author manuscript; available in PMC: 2023 May 7.
Published in final edited form as: Nat Methods. 2019 Oct 7;16(11):1139–1145. doi: 10.1038/s41592-019-0576-7

Figure 4.

Figure 4

Demonstration of SAUCIE’s batch correction abilities. A) SAUCIE batch correction balances perfect reconstruction (which would leave the batches uncorrected) with perfect blending (which would remove all of the original structure in the data) to remove the technical variation while preserving the biological variation. B) The effect of increasing the magnitude of the MMD regularization on the dengue data of size 41721. Sufficient MMD regularization is capable of fully removing batch effect. C) Results of batch correction on the synthetic GMM data (of size 2000) (top) and the dengue data (bottom) shows that SAUCIE better removes batch effects than MNN and better preserves the structure of the data than CCA.