Difference between revisions of "User:Hussein Alasadi/Notebook/stephens/2013/10/16"

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(Simulating evolution and then pooled sequencing)
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==Simulating evolution and then pooled sequencing==
 
==Simulating evolution and then pooled sequencing==
  
* '''We start with a population of N individuals with a certain SNP distribution <math> P(M) ~ N(\mu, \Sigma) </math>.'''
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* '''We start with a population of N individuals with a certain SNP distribution <math> P(M) \~ N(\mu, \Sigma) </math>.'''
 
To do this we can use Dick Hudson's MS to lay down neutral variants (but the distribution really does not matter).
 
To do this we can use Dick Hudson's MS to lay down neutral variants (but the distribution really does not matter).
  

Revision as of 20:16, 16 October 2013

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Simulating evolution and then pooled sequencing

  • We start with a population of N individuals with a certain SNP distribution Failed to parse (MathML with SVG or PNG fallback (recommended for modern browsers and accessibility tools): Invalid response ("Math extension cannot connect to Restbase.") from server "https://api.formulasearchengine.com/v1/":): {\displaystyle P(M) \~ N(\mu, \Sigma) } .

To do this we can use Dick Hudson's MS to lay down neutral variants (but the distribution really does not matter).

  • We then evolve the populations for g generations with recombination

To do this we can use Kessner's Forqs. Forqs allows the user to specify the recombination rate file. Which might be useful in the future.

  • Simulate pooled sequencing