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Reference Files
=== Reference Files ===
Reference files can be downloaded with GotCloud or from other sources.* For this practical, I already downloaded them for you.
* See [[GotCloud: Genetic Reference and Resource Files]] for more information on downloading/generating reference files
#* hapmap - used as likely true positives for SVM filtering and for generating summary statistics
#* dbsnp - used for generating summary statistics
 
We looked at them yesterday, but you can take another look at the chromosome 22 reference files included for this tutorial:
ls ${REF}
 
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[[File:RefDir.png|500px]]
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=== GotCloud Configuration File ===

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