Variant allele frequency with copy number
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23 months ago
9521ljh ▴ 50

the variant allele frequency(VAF) related to time-series, e.g. higher VAF related to early mutation, lower VAF related late occurred mutation.

However, if the copy number amplification with late occurred mutation, this VAF might high if mutation allele- amplified or low if wild-type allele amplified.

is there any tools to handling this kind of problem? to calculate corrected VAF?

sequencing SNP • 543 views
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I don't understand how higher VAF automatically means the mutation happened earlier. Can you explain that (or point to a paper) please?

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