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Fig. 3 | BMC Genomics

Fig. 3

From: Linear models enable powerful differential activity analysis in massively parallel reporter assays

Fig. 3

Comparison of detection rates and p-value calibration over datasets. (a) QQ-plots (row 1), and (b) density plots (rows 2 and 3) for p-values for all datasets, including a zoom of the [0,0.1] interval for some datasets (row 3). Over all datasets, most methods show p-values that closely follow the classic mixture of uniformly distributed p-values with an enrichment of low p-values for differential elements. For the datasets which had barcode level counts (Inoue, Ulirsch, and Shen), we used two types of estimators of the activity measure (log-ratio of RNA/DNA) with mpralm, shown in light and dark blue

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