Figure 4.

True false discovery rates. True false discovery rates (FDR) observed for an imposed FDR threshold of 0.05, for the nine methods returning adjusted p-values or FDR estimates, in simulation studies <a onClick="popup('http://www.biomedcentral.com/1471-2105/14/91/mathml/M31','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2105/14/91/mathml/M31">View MathML</a> (panel A), <a onClick="popup('http://www.biomedcentral.com/1471-2105/14/91/mathml/M32','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2105/14/91/mathml/M32">View MathML</a> (panel B), <a onClick="popup('http://www.biomedcentral.com/1471-2105/14/91/mathml/M33','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2105/14/91/mathml/M33">View MathML</a> (panel C) <a onClick="popup('http://www.biomedcentral.com/1471-2105/14/91/mathml/M34','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2105/14/91/mathml/M34">View MathML</a>, (panel D), <a onClick="popup('http://www.biomedcentral.com/1471-2105/14/91/mathml/M35','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2105/14/91/mathml/M35">View MathML</a> (panel E) and <a onClick="popup('http://www.biomedcentral.com/1471-2105/14/91/mathml/M36','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2105/14/91/mathml/M36">View MathML</a> (panel F). With only two samples per condition, three of the methods (vst+limma, voom+limma and SAMseq) did not call any DE genes, and the FDR was considered to be undefined.

Soneson and Delorenzi BMC Bioinformatics 2013 14:91   doi:10.1186/1471-2105-14-91
Download authors' original image