Question: How to create map file for synthetic genome data?
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gravatar for jody.xha
5.4 years ago by
jody.xha0
European Union
jody.xha0 wrote:

Hi

We have generated genome data from a simulation and would like to analyse it with plink.
I have built an output module which creates a ped file, but some questions remain..
 

The first question is: what should i use for the 'phenotype ' value in the ped file?

Currently, i set it to 1 ('unaffected') - is that OK?
 

The second question is about the map file.

Since our genomes do not reside on any chromosomes and do not have a base pair position on the human genome, i don't know how to create  a map file for our data.
 

Do you have a suggestion how i should proceed?

 

Thank You

plink • 1.5k views
ADD COMMENTlink written 5.4 years ago by jody.xha0

This post might be relevant. Any Recommendation On Program That Could Simulate Gwa Case/Control Data ?

ADD REPLYlink written 5.4 years ago by zx87548.4k
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