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  Topic: Evolutionary Computation, Stuff that drives AEs nuts< Next Oldest | Next Newest >  
AnsgarSeraph



Posts: 11
Joined: June 2009

(Permalink) Posted: June 11 2009,13:23   

Quote (Steve Schaffner @ June 11 2009,13:02)
For those who have the program running . . . Can it provide more output? Comparing results with theory would be much more straightforward if one could count only the number of mutations that have fixed, rather than all present in the population; it would also be useful to see the allele frequency spectrum. (And if it can't do those things, then it is of no interest as a population genetics tool.)

Is the allele frequency spectrum you're looking for in here?

Box.net - human1 sample Folder

I think what you're looking for might be titled "human1_plm.png".

The output files in MENDEL do give a count for the number of fixed alleles; it's near the bottom of the output file and looks like this:

Code Sample

Allele summary statistics (tracked mutations only):
   (Statistics are based on       891517 tracked deleterious mutations
                        and            0 tracked   favorable mutations.)
    Very rare   Polymorphic     Fixed      Total
      (0-1%)      (1-99%)      (100%)
       15107        8202           0       23309 deleterious
           0           0           0           0 favorable


—Sam

  
  355 replies since Mar. 17 2009,11:00 < Next Oldest | Next Newest >  

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