Fig. 4
From: Fast and sensitive validation of fusion transcripts in whole-genome sequencing data
Comparison of our WGS fusion validation pipeline to other tools. Our pipeline is sensitive, confirming the presence of 62 fusions that were not detected by BreakDancer or Manta (A). Every fusion event validated by BreakDancer or Manta was also detected by our pipeline in both BRCA and GBM samples (B). Samples validated by our pipeline alone had fewer discordant read pairs supporting each fusion event on average, although we were able to several highly supported events in GBM that were missed by the other tools (C). Fusions that were also detected by Manta or BreakDancer were more likely to be further supported by a genomic breakpoint (D). Our pipeline was better at validating fusions between close genes, and the other tools validated a disproportionate number of lincRNA fusions and known fusions listed in the ChimerDB 3.0 database (E). Our pipeline was substantially faster to run than the other tools, with each sample running in a matter of seconds as opposed to hours (F)