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pmelsted / pizzly

Fast fusion detection using kallisto
BSD 2-Clause "Simplified" License
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How does pizzly work ? #10

Closed ahy1221 closed 7 years ago

ahy1221 commented 7 years ago

Very interesting software. But how does this tool work? I guess you do assemble all possible fusion transcripts sequence according to GTF reference and do the quantification for these transcripts to see whether they are expressed?

pmelsted commented 7 years ago

Pizzly is based on detecting reads that span fusion junctions to call potential fusions. Once the fusion sequences are called kallisto can be used to quantify the expression of potential fusions. An example of this workflow is in the Snakefile in the test directory.

The preprint describing the details is coming soon.