We have designed IDT probe to enrich the target region for tumor samples, including intron regions of known fusion genes.
We have tried several fusion detection tools, such as delly, manta, genefuse to determine the fusion status, however, we found delly and manta were sometimes lack of sensitivity, especially for ctDNA based data. While genefuse was too sensitive, which always gave noise/false fusion results. And genefuse can not determine structure variants such as exon deletion (MET EXON14 SKIP).
Can anyone help?