Question: Plotting numbers of somatic substitutions per megabase (MB)
0
gravatar for rahel14350
13 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 13 months ago by Obi Griffith16k • written 13 months ago by rahel1435020
1

If you are targeting this question at a specific Biostars user you could search for their user link under "community" ( e.g. your ID is https:// www.biostars.org/u/18508/ , a space added between // www to demonstrate what this ID looks like before it is automatically converted by Biostars code) and add that to your post.

This would "tag" that user and alert them that a question needs their attention.

Note: You can also right click on their user name and choose "copy link or copy link location" to get their Biostars ID.

ADD REPLYlink modified 13 months ago • written 13 months ago by GenoMax42k

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 13 months ago by Obi Griffith16k

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 13 months ago by rahel1435020
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 942 users visited in the last hour