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Published 20 hours ago • verified publisher icon MSKCC-Epi-Bio

Outstanding cBioPortal Data Questions

Open karissawhiting opened this issue 2 years ago • 0 comments

  1. Fusions Data

    • breakpointType
    • svStatus
    • variantClass
    • sometimes in fusions, site 1 is non impact gene but site 2 is impact gene (e.g. gnomeR::sv SHBG-TP53)
    • what about old fusions format? ask Esther about github example

  2. Names in maf versus API output -HGVSp, HGVsg / ProteinChange

  3. Consequence Map- "The following variant classification levels are not recognized: Intron, 3'UTR, RNA, Silent, and 5'UTR. Please remove or recode these to continue (see oncokbR::consequence_map for allowed values)"

karissawhiting avatar Nov 11 '22 17:11 karissawhiting