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. Author manuscript; available in PMC: 2017 Aug 8.
Published in final edited form as: Nat Methods. 2016 Mar 28;13(5):443–445. doi: 10.1038/nmeth.3809

Figure 2.

Figure 2

Results of the RA methylation analysis, presented by quantile-quantile plots of the –log10 p-values for the association tests. Significant deviation from the red line indicates an inflation arising from a confounder in the data. (a) No correction. (b) Correction using the reference-based estimates of the cell-type proportions. (c) Correction using the first couple of PCs of a standard PCA. (d) Correction using RefFreeEWAS. (e) Correction using FaST-LMM-EWASher. (f) Correction using the first ReFACTor component.