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akdemirlab / MutationalDistribution

Set of scripts utilized in Akdemir et al., Nat Genetics Oct. 5 2020.
MIT License
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how to make fig.1g #1

Open BenxiaHu opened 3 years ago

BenxiaHu commented 3 years ago

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 commented 3 years ago

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 commented 3 years ago

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

akdemirlab commented 3 years ago

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