Reproducibility of detections between laboratories. Reproducibility of PECA-SI, RMA-SI, PLIER-SI, RMA-MIDAS, PLIER-MIDAS, RM-LM, PLIER-LM and FIRMA in detecting differential splicing between laboratories. The ability of the methods to detect the same candidate splicing events in two independent hybridizations of the same biological samples was investigated at sample sizes of two to four (x-axis). The reproducibility was measured as the overlap of the top-ranked 500 detections between the laboratories. At each sample size, the average reproducibility is shown together with the standard error of the mean (error bars). The same datasets were analyzed with the different detection methods. Reproducibility in random data is shown as a reference (0.002). Similar results were produced with the top-ranked 100, 1,000, 1,500 and 2,000 detections [see Additional data file 2].