mergesvvcf

Merge SV VCF calls. Fork of https://github.com/ljdursi/mergevcf by Jonathan Dursi (Jonathan.Dursi@oicr.on.ca)


Keywords
merge, sv, vcfs
License
GPL-2.0+
Install
pip install mergesvvcf==1.0.1

Documentation

Merge SV VCFs

This set of routines merges SV VCF files by calls, labeling calls by the callers that made them in an INFO field, Callers=. Most of the work goes into normalizing SV calls, which are treated as paired of breakpoints that are equal if they fall within a user-specified window.

Known Issues

  • INFO and FORMAT merged for multiple from same caller with only be for last record
  • Individual Caller Genotype not kept