FuSpot is a local alignment and visualization tool that, simply, puts the power to evaluate real-world gene fusions in your hands. Using a novel alignment technique, FuSpot will simultaneously align reads to fusion and non-fusion gene transcripts. This, in tandem with FuSpot's read extraction tool, builds a comprehensive picture of your candidate fusion breakpoint by visualizing the alignments of all the reads local to your breakpoint. Download the read extraction tool, use it to retrieve reads local to your breakpoint, then upload them here after entering the candidate fusion breakpoint coordinates to get started.
Visualize Saved Alignment
How to get reads to input to FuSpot?
Align with a Chimeric-capable RNA aligner. Then download our read extraction tool and run it on your aligned file to get reads local to the candidate fusion.