Question: Smoothing densities of genes in R
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gravatar for User000
3.5 years ago by
User000390
User000390 wrote:

I have a table with chromosomes bins of 1Mb size and the density of expressed genes. I would like to smooth the densities and get the values. Could somebody suggest how to do that?

rna-seq R • 1.1k views
ADD COMMENTlink modified 3.5 years ago • written 3.5 years ago by User000390

Hi

Could you tell me how did you make table with chromsones bins 1Mb size and the density of expressed genes.

Thanks

ADD REPLYlink written 8 weeks ago by bioinformatics.queries0
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gravatar for EVR
3.5 years ago by
EVR570
Earth
EVR570 wrote:

What do you mean by smoothing? Have you tried making density plot by taking log2(values)?

ADD COMMENTlink written 3.5 years ago by EVR570

I am not sure, but may be something like this? fit <- ksmooth(genes$pos, genes$value, bandwidth = 10^6) But I also want to take into account each chromosome

ADD REPLYlink modified 3.5 years ago • written 3.5 years ago by User000390
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