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Revision as of 11:07, 2 February 2017
, 11:07, 2 February 2017→Download the example data
'''Note:''' the latest version of this practical is available at: [[SeqShop: Sequence Mapping and Assembly Practical]]
* The ones here is the original one from the June workshop (updated to be run from elsewhere)
== Introduction ==
== Introduction ==
See the [[Media:SeqShop - GotCloud Align.pdf|introductory slides]] for an intro to this tutorial.
See the [[Media:SeqShop - GotCloud Align.pdf|introductory slides]] for an intro to this tutorial.
=== Download the example data ===
=== Download the example data ===
Download and untar file containing the example data used in the practicals:
Download and untar file containing the example data used in the practicals:
wget http://www.sph.umich.edu/csg/mktrost/seqshopExample.tar.gz
wget http://csg.sph.umich.edu//mktrost/seqshopExample.tar.gz
tar xvf seqshopExample.tar.gz
tar xvf seqshopExample.tar.gz
<li>View Screenshot</li>
<li>View Screenshot</li>
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[[File:RefDir.png|500px]]
[[File:RefDir.png|700px]]
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<li>Need a reminder of the format?</li>
<li>Need a reminder of the format?</li>
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[[File:fqindex.png|650px]]
[[File:fqindex.png|750px]]
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<li>HG00553 & HG00640</li>
<li>HG00553 & HG00640</li>
<li>They have multiple unique values in the RGID field</li>
<li>They have multiple unique values in the RGID field</li>
[[File:fqindexRG.png|650px]]
[[File:fqindexRG.png|800px]]
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; If your references are in a different path than what is specified, what would you change?
; If your references are in a different path than what is specified, what would you change?
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<ul>
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<li>Answer:</li>
<li>Answer:</li>
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<ul>
<ul>
<li>You would change <code>REF_DIR</code> to the new path</li>
<li>You would change <code>REF_DIR</code> to the new path</li>
[[File:gcConf.png|500px]]
[[File:gcConf.png|800px]]
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