Figure 4From: SAMMate: a GUI tool for processing short read alignments in SAM/BAM formatCombination of Exon Reads with Junction Reads to Accurately Calculate Gene Expression RPKM Scores. (a) A unique challenge for researchers working with RNA-seq data. The junction reads (red) fail to map back to the reference genome because exons are separated by introns. (b) A demonstration of the ideas of combing exon reads (black) and junction reads (red) to calculate gene expression RPKM scores.Back to article page