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Uses SciKit Learn library's Mean Shift implementation to draw a chart of mosaic variants

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Mosaic Clusterer

Test scripts to investigate Mean Shift clustering with filtered VCF files containing mosaic variants.

  • Call variants as normal against sample using GATK HaplotypeCaller
  • Recall using GATK HaplotypeCaller with ploidy set to 5
  • Filter high ploidy file agains normal VCF
  • Filter to remove variants of no known medical impact and high frequency in ExAC
  • Use Mosaic Clusterer to check for the clustering of mosaic variant (HTZ/HMZ)

Mosaic variants clustered by Mean Shift

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Uses SciKit Learn library's Mean Shift implementation to draw a chart of mosaic variants

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