Ensure Transgene spits out GENCODE revisions for fusions

arkal / Transgene

This is a repository to host the transgene tool. Transgene takes a snpeffed vcf and a peptide fasta , and returns 3 peptide fastas containing 9-, 10- and 15-mers harboring the called mutations

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Ensure Transgene spits out GENCODE revisions for fusions #20

Closed arkal closed 7 years ago

arkal commented 7 years ago

@jpfeil can you look at this?

jpfeil commented 7 years ago

@arkal What are GENCODE revisions?

arkal commented 7 years ago

"neoepitope_15": "ENSG00000135749.14\tPCNXL2\tENST00000258229.9_G1590W,ENST00000344698.2_G242W", 
"neoepitope_13": "ENSG00000120071-ENSG00000228696\tKANSL1-ARL17B\tENST00000576739.1-ENST00000572991.1_FUSION_Junction:5-Spanning:27",

The .XYZ at the end of the ENSG name

jpfeil commented 7 years ago

@arkal Yeah, I can add the gencode revisions.