Fig. 1

Results for the differential transcript abundance workflow, at the gene level. a Density plots of transcript abundance. b Pair plot of the first three reduced dimensions. c Boxplots of the first three reduced dimensions, before and after removal of unwanted variation. d Scatter plot of count per million against fold change. Genes highly differentially transcribed are highlighted in red. e Heatmap of the gene transcriptional abundance for the differentially abundant transcripts, at the gene level. f Boxplot of the transcript abundance for the top six differentially abundant transcripts at the gene level, for raw, scaled, and adjusted abundance