Question: Plotting numbers of somatic substitutions per megabase (MB)
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gravatar for rahel14350
22 months ago by
rahel1435020
United States
rahel1435020 wrote:

Dear Obi Griffith, Is there a way to plot the "Mutations per MB" in a separate plot not as a part of Waterfall using GeneVisR? Something like figure 1 in Alexandrov et al., 2016 https://d2ufo47lrtsv5s.cloudfront.net/content/sci/354/6312/618/F1.large.jpg Many thanks in advance, Rahel figure1

ADD COMMENTlink modified 22 months ago by Obi Griffith17k • written 22 months ago by rahel1435020
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ADD REPLYlink modified 22 months ago • written 22 months ago by genomax58k

Are you supplying the Alexandrov example just to demonstrate layout? I ask because this figure has a lot more going on than just mutations/MB. It is showing mutations/MB brokend down by mutation type in several different ways. If that is what you want then it is a complicated question/answer.

ADD REPLYlink written 22 months ago by Obi Griffith17k

Dear Obi Griffith , Many thanks for your prompt reply. From this figure, I want to have the first part "Somatic substituion" per MB. I know that we can make a plot for mutations per MB in upper part of waterfall graph. But is that possible to make like this? I also have the mutation signatures using Maftools but that one also is not per MB.

ADD REPLYlink written 22 months ago by rahel1435020
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