Copy Number Alteration and Loss or Heterozygosity
Dear all,
I would appreciate having a piece of advice :
Given the output from a copy number caller (FACETS, TitanCNA, Sequenza, Sclust) which criteria shall I apply on LogR and BAF (B allele frequency, minor allele frequency) in order to annotate the CNA/LOH as : homozygous deletion, heterozygous deletion, diploid, copy number gain, copy-number amplification, copy-number LOH ?
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