Gene fusion is a key factor in sarcomas, lymphomas, leukemias and so on. In order to help
biologist to discover the target of the treatment, we developed VFP to predict gene-fusion from single-end
RNA-sequencing reads. VFP employs seed index strategy and octal encoding operations for sequence
alignments. By using several rules to score and filter the potential fusion genes, VFP could detect known and
novel fusions through a series of tests on lymphoma and melanoma RNA-sequencing datasets.