What kind of normalization to do when plotting aggragate plot using two different chip-seq bam files
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8 months ago

Hi, all, I have two samples of Chip-seq experiment, one treated with DMSO and another treated with a drug, I want to compare the two on enhancers, so I will plot an aggregate plot on the enhancer regions using the two chip-seq file using ngs.plot.r. but the two files must have different sequencing reads, I am wondering what kind of normalization is needed for the two files? Or ngs.plot.r can normalize by itself when plotting the figures. Thanks!

Chip-seq normalization ngs.plot.r • 580 views
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ngs.plot.r do the normalization itself.

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