Fig. 2
From: Sensitivity, specificity, and reproducibility of RNA-Seq differential expression calls
Traditional M(A) plots for A-vs-C and A-vs-A comparisons. The left panel displays the overlap of differential expression calls by different methods for an A-vs-C comparison, while the right panel shows results for a C-vs-C comparison. Partial agreement between different methods is indicated by different colours (see legend). Grey clouds represent unregulated genes. Plots show data for a typical site for read counts after normalization but without correction by factor analysis or any filters