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Revision as of 17:27, 21 March 2013
, 17:27, 21 March 2013→Running the GotCloud Variant Calling Pipeline
= Running the GotCloud Variant Calling Pipeline =
The variant calling pipeline (umake) is run using <code>gotcloud snpcall</code> and <code>gotcloud ldrefine</code>. <code>gotcloud</code> is found under <code>gotcloud/</code>.
The variant calling pipeline (umake) is run using <code>gotcloud snpcall</code> and <code>gotcloud ldrefine</code>. <code>gotcloud</code> is found under <code>gotcloud/</code>.
If you see "Successfully ran the test case, congratulations!", then you are ready to align samples.
If you see "Successfully ran the test case, congratulations!", then you are ready to align samples.
== Overview of Variant Calling Pipeline Steps ==
== Overview of Variant Calling Pipeline Steps ==
