Hanyin Wang
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Latest activity by Hanyin Wang-
Hanyin Wang commented,
This is tremendously helpful! Thank you so much Pamela.
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Hanyin Wang commented,
Thanks for the kind reply Pamela! I am so sorry I meant to say the issue is with PlotDenoisedCopyRatios. No issue with PlotModeledSegments. Would be happy to change the question if there's a way. H...
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Hanyin Wang created a post,
Not generating denoisedLimit4.png with PlotModeledSegments
If you are seeing an error, please provide(REQUIRED) : a) GATK version used: 4.1.8.1 b) Exact command used: gatk PlotModeledSegments \ --denoised-copy-ratios {input.denoisedCR} \ --allelic-c...
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Hanyin Wang commented,
Many thanks Genevieve! Would you mind if I wish to seek some clarification from David? My question is really using multi sample mode, how do we tell for example variant a and b only present in samp...
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Hanyin Wang commented,
Hey Genevieve, Thanks for the kind reply! However the reason I am reaching out in the first place, is because the multisample mode in Mutect2 by design would not be able to "report a variant as bei...
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Hanyin Wang commented,
Hey Genevieve, Thanks for the kind reply. Yes, this is essentially my purpose. As an example, let's say if I have 3 tumor samples of the same tumor from time 0, 6 month and 12 month, as well as ger...
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Hanyin Wang commented,
Hey Genevieve, Thanks for the kind reply. I did review that post extensively, however I believe I am asking a different question here. Many thanks. Hanyin
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Hanyin Wang created a post,
Best practice for using Mutect2 in serial tumor samples from same patient
AnsweredHello there, I have looked into multiple reference and articles on this topic and most a huge variability in practice. Would deeply appreciate some guidance. Let's say I have sequential tumor sam...