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Complex SV intervals support

Open mwalker174 opened this issue 9 months ago • 0 comments

  • Complex (CPX) SV records no longer use END2/CHR2 INFO fields and instead are defined by CPX_INTERVALS in addition to normal coordinates.
  • Adds new class SVCallRecord.ComplexEventInterval for storing complex event intervals, which are associated with a particular SV type.
  • SV clustering now takes into account CPX subtype and intervals, requiring intervals to match on type and interval similarity as defined by the clustering parameters (e.g. minimum reciprocal overlap).
  • Improved reciprocal translocation (CTX) record handling. In particular, these records are now treated similarly to BNDs for clustering purposes.
  • Added unit tests for new CPX cases.

mwalker174 avatar Sep 15 '23 17:09 mwalker174