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EPACTS for DIAGRAM (view source)

Revision as of 17:57, 1 October 2012

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== 4.  Run EPACTS association pipeline  ==
 
== 4.  Run EPACTS association pipeline  ==
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For detailed description of options, use:
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For detailed description of options, use:  
 
<pre>epacts2.1/epacts single -man
 
<pre>epacts2.1/epacts single -man
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</pre>
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</pre>  
 
There are three separate association analyses to be completed:  
 
There are three separate association analyses to be completed:  
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A. &nbsp;Typical DIAGRAM analysis using existing association pipeline  
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[http://genome.sph.umich.edu/wiki/EPACTS_for_DIAGRAM#A._Typical_DIAGRAM_analysis_using_existing_association_pipeline A. &nbsp;Typical DIAGRAM analysis using existing association pipeline]
    
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B. &nbsp;Analysis of all SNPs using logistic regression score test  
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[http://genome.sph.umich.edu/wiki/EPACTS_for_DIAGRAM#B._Analysis_of_all_SNPs_using_logistic_regression_score_test B. &nbsp;Analysis of all SNPs using logistic regression score test]
    
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C. &nbsp;Analysis of low frequency variants using Firth bias-corrected logistic regression  
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[http://genome.sph.umich.edu/wiki/EPACTS_for_DIAGRAM#C._Analysis_of_low_frequency_variants_using_Firth_bias-corrected_logistic_regression C. &nbsp;Analysis of low frequency variants using Firth bias-corrected logistic regression]
    
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Clement Ma
216

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