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how to make fig.1g #1

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BenxiaHu opened this issue Nov 2, 2020 · 3 comments
Open

how to make fig.1g #1

BenxiaHu opened this issue Nov 2, 2020 · 3 comments

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@BenxiaHu
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BenxiaHu commented Nov 2, 2020 •
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Hi,
I just check out your great work entiltled "Somatic mutation distributions in cancer genomes vary with three-dimensional chromatin structure".
Would you like to explain how you analyze the fig.1g?
Best,
@akdemirlab
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Hi,
Would you like to learn about fig 1a or 1g?
For 1a, you can use MutationAggregate.py file, for 1g, I'd need to upload a code for generating the random sites.

@BenxiaHu
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sorry.
I would like to learn about Fig.1.g.

@akdemirlab
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Sure. I will share a code soon.
Briefly, I shuffle genomic regions with pybedtools and plot the observed vs expected numbers.

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@akdemirlab @BenxiaHu