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GotCloud: Variant Calling Pipeline (view source)

Revision as of 18:45, 23 October 2014

137 bytes added ,  18:45, 23 October 2014
→‎Chromosome X Calling
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==== Chromosome X Calling ====
 
==== Chromosome X Calling ====
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Making calls on the X chromosome requires the user to specifty a PED file with sex information.
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For proper Chromosome X calling, it is recommended to specify a PED file with sex information:
 
* PED_INDEX = pedfile.ped
 
* PED_INDEX = pedfile.ped
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Format of PED file:
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:<code>familyID  sampleID  fatherID  motherID  sex</code>
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* Only <code>sampleID</code> and <code>sex</code> are used
    
=== Example Configuration File ===
 
=== Example Configuration File ===
Retrieved from "http://genome.sph.umich.edu/wiki/Special:MobileDiff/11874"

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