Comparisons of rSeqDiff, MATS, Cuffdiff 2 and RT-PCR assays.

Abstract

<p>(A) Scatter plot of the <i>Δψ</i> values estimated by rSeqDiff (using junction reads only) and MATS. (B) Scatter plot of the <i>Δψ</i> values estimated by rSeqDiff (using junction reads only) and RT-PCR. (C) Scatter plot of the <i>Δψ</i> values estimated by rSeqDiff (using all reads) and RT-PCR. (D) Scatter plot of the log2 fold changes of isoform abundances between ESRP1 and EV estimated by rSeqDiff and Cuffdiff 2. Transcripts classified as model 0, model 1 and model 2 are shown in green, blue and red, respectively. The solid line is the regression line. The dashed line is the y = x line, which represents perfect agreement of the two methods. <i>Δψ</i>: difference of exon inclusion level between ESRP1 and EV; PCC: Pearson Correlation Coefficient; SCC: Spearman Correlation Coefficient.</p