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Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing.
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facets focus on asan, so what is different from conventinal tool cnvkit? #119

Closed kobejamescurry closed 5 years ago

kobejamescurry commented 5 years ago

Sorry, I'm bombarding you with questions... I'd like to make sure my understanding is correct.

facets focus on asan(Allele-specific copy number analysis (ASCN)), so what is different from conventinal tool cnvkit? is not all gene allelie gene, sorry for the stupid question, thanks a lot

veseshan commented 5 years ago

Issues are meant to be specific to the software at hand. For questions regarding differences between total and allele specific (or parental) copy numbers or the basis for different algorithms it will be helpful to pose them in more relevant forums.

kobejamescurry commented 5 years ago

thanks for your comment, can you clarify it more clearly, I tried to find some paper describing difference, but failed. I do not undertand "between total and allele specific (or parental) copy numbers ". just as I said, I thinks all genes are allelie gene, is that not right, thanks a lot

kobejamescurry commented 5 years ago

it seems that allelic-specific is more accurate and concrete than just calculating total . so why still so many people not using asan cnv tool, but using cnvkit. thanks a lot image