From: Arianne ALBERT <Arianne.ALBERT_at_cefe.cnrs.fr>

Date: Mon 02 Apr 2007 - 14:31:16 GMT

R-help@stat.math.ethz.ch mailing list

https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. Received on Tue Apr 03 00:47:52 2007

Date: Mon 02 Apr 2007 - 14:31:16 GMT

Hello,

I'm writing some genetic simulations in R where I would like to place genes along a chromosome proportional to the density of markers in a given region. For example, a chromosome can be presented as a list of marker locations:

Chr1<-c(0, 6.5, 17.5, 26.2, 30.5, 36.4, 44.8, 45.7, 47.8, 48.7, 49.2, 50.9, 52.9, 54.5, 56.5, 58.9, 61.2, 64.1)

Where the numbers refer to the locations of markers along the chromosome. As you can see, there are a lot of markers around 50, but they are less dense elsewhere. I would like to take this information to randomly select a location on the chromosome to put a gene, where we are more likely to pick a location with high marker density (instead of using a uniform distribution between 0 and 64.1).

So far I've used density(Chr1) to generate the probability density, but can this also be used to generate a random number? All the help I can find suggests getting the quantile function (the reciprocal of the integral of the pdf), however, it doesn't seem as though density() returns a pdf that can be manipulated in this way. Any suggestions?

Thanks in advance,

Arianne

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https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. Received on Tue Apr 03 00:47:52 2007

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