Normalized sashimi plots with Gviz
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@benjamincarter-20814
Last seen 2.5 years ago

Hello, I have some RNA-seq data and would like to generate sashimi plots to visualize differential exon usage between samples. I would like these plots to be normalized for library size. I would also like to use R if possible to work with existing pipeline. I see that Gviz can generate sashimi plots, but I am not sure if it can normalize the output for library size. Does anyone have any suggestions for how to use Gviz or other R package to accomplish this? Thanks for the assistance!

-Ben

Gviz Sashimi • 428 views
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Hi Ben, did you find any solution? I have a related question, I want to visualize Mutations in normalized RNA-Seq data...

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Can you be more specific? with detailed example?

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Hi,

It is currently not implemented to have normalized sashimi plots. Quick solution might be to read-in only fraction of the data and make the figure with imported data instead.

Best Robert

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