Re: [Swarm-Modelling] population genetics

[Scott Christley]

Hi Paul,

I don't have an example that I can give you, but here is the general  
idea:

* Read data from a file into memory variables.  The difficulty here  
is often what format is the data file; is it a standard format like  
XML or HDF where you can use an existing library to read the data, or  
is it a specialized format.  If it is a specialized format, you might  
need to use the low-level C library functions like fread or fscanf to  
read the data directly from the file.

* Copy the data from the memory variables into instance variables for  
your agents, say by calling a method you define for your agent and  
pass the data as a parameter.

If you have specific problem I can give you more detail, but because  
data files come in an endless number of different formats, it is  
generally not possible to have one standard routine for reading all  
possible data files.

cheers
Scott

On Oct 29, 2006, at 3:29 PM, Paul Johnson wrote:

> I'd just like to know / see examples of models that read in  
> detailed data to initialize a simulation.  Anybody got one besides  
> the Anasazi Village model??
>
> pj
>
> Scott Christley wrote:
> > Greetings,
> >
> > Is anybody aware of research with an agent-based model (or other   
> > modeling approaches) that simulates evolution (recombination/  
> > mutation) on actual genomic data?  I'm aware that genetic  
> > algorithms  often use an artificial genome with attributes encoded  
> > in artificial  genes, but I am looking for anybody who is using  
> > actual nucleotide  sequence.  For example, a population genetics  
> > study may have  sequenced a number of alleles for an organism,  
> > then use those alleles  (and possible allele frequencies) to  
> > simulate and predict how  environmental changes could affect the  
> > population diversity.  I am  able to find empirical studies which  
> > record allozyme diversity across  species, spatially, etc. but I  
> > have not found anybody doing  simulations with the actual genomic  
> > data.
> >
> > thanks
> > Scott
> >
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>
> --
> Paul E. Johnson                       email: address@hidden
> Professor, Political Science          http://pj.freefaculty.org
> 1541 Lilac Lane, Rm 504                              University of  
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