An example of the assembled transcripts by the Rnnotator pipeline. A) A GBrowse snapshot of assembled transcripts illustrating the effect of different Velvet k-mer parameters. Current annotated genes are shown on top, genes from forward and reverse strand are represented in red and blue, respectively. In grey the assembled contigs for five k-mer lengths are shown. The merged contigs are shown at the bottom. B) Contigs are split according to stranded RNA-Seq read coverage (bottom) into transcripts from opposite strands (top). Read coverages are shown in log2 scale, reads originated from the forward strand are shown in red and those from reverse strand are shown in blue.
Martin et al. BMC Genomics 2010 11:663 doi:10.1186/1471-2164-11-663