ChIPseeker read count calculation
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c.merce • 0
@cmerce-10061
Last seen 7.2 years ago

Hello,

I'm interested in using ChIPseeker but there is a point I don't quite understand:
As plotAvgProf() only needs a BED file in order to generate the profile plot, how can you calculate the Read Count Frequency ?
Also, I don't manage to modify the plot aspect, like lines width or color.

Thanks a lot for your help !

chipseeker plotAvgProf • 941 views
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Guangchuang Yu ★ 1.2k
@guangchuang-yu-5419
Last seen 6 months ago
China/Guangzhou/Southern Medical Univer…

pls read the vignette carefully before asking question like this.

The input of plotAvgProf() is definitely not a BED file.

 

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Hello,

Thank you for your reply.

I just realized my mistake checking the content of GEO_sample_data.

Could you please help me with my second issue ? I see that plotAvgProf() is based on ggplot, but I still don't manage to modify my plot, using plotAvgProf() on a tagMatrixList.

Thank you for your time

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hv no idea what 'modify' you want and this is an ggplot2 issue. It would be better to open a new post in stackoverflow or somewhere else.

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