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non-synthesized-reference breakpoint detail view #224

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rbuels opened this Issue Mar 22, 2019 · 2 comments

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rbuels commented Mar 22, 2019

This is a detail view for looking at a single breakpoint.

  • draw a lineargenomeview for the reference for one end of it at the top
  • another lineargenomeview for the reference for the other end below that
  • draw a line from one to the other
chr1
====|===============
     \
      \
       \
chr13   \
=========|===========

depends on GMOD/vcf-js#9

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cmdcolin commented Mar 22, 2019

Some notes

Breakends are pairwise. They associate two parts of the genome together. They can have a MATEID that says what the ID of the feature is on the other side of it. They can also have an EVENT that groups multiple breakends together

@rbuels rbuels changed the title breakpoint detail view non-synthesized-reference breakpoint detail view Apr 19, 2019

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cmdcolin commented Apr 19, 2019

The non-synthesized reference view breakpoint lines should have little "feet" that show the directionality of the breakends. This allows you to see

chr1:1:5000 ----> chr13:5000:Infinity

Or it could be that that it this break is reversed and you have

chr1:1:5000 ----> chr13:5000:1

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