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Estimated protein size as classification parameter

I used coding DNA sequence (CDs) to predict the average of the protein size of E.coli k12 from a sample provided by the seqinr R package ,data ec999. The size of each sequence is stored in variable x. I used two histograms to fit the distribution of this variable and their 10 base logarithm.

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I suggest that the log linear distribution is more reasonable.The average E can be calculated then:

E1=mean(x)/3

E2=exp(mean(log(x)))/3
  • I have to classify CDS data from different genome, shall I use E2 and theirs standard deviation as parameters?
r genome
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written by Macherki M E Macherki M E

I suggest that the log linear distribution is more reasonable.

reasonable for what?

Classification with respect to what kind of annotation or classes? If the CDS is correct then then length(AA) == length(CDS)/3. You can also simply use the know protein lengths from the genome annotation.

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written by Michael Dondrup Michael Dondrup

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