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, 12:52, 31 October 2014
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| | #:[[File:SnpSummary.png|700px]] | | #:[[File:SnpSummary.png|700px]] |
| | #:*'''To understand how to interpret the filtering summary statistics, please refer to [[Understanding vcf-summary output]]''' | | #:*'''To understand how to interpret the filtering summary statistics, please refer to [[Understanding vcf-summary output]]''' |
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| − | === Run GotCloud ldrefine ===
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| − | Now run GotCloud ldrefine
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| − | # <pre>gotcloud ldrefine --conf example/test.conf --outdir output --numjobs 8</pre>
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| − | #* The ubuntu user is setup to have the gotcloud program and tools in its path, so you can just type the program name and it will be found
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| − | #: [[File:RunIndel.png|700px]]
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| − | #:* This will take a few minutes to run.
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| − | #:* GotCloud first generates a makefile, and then runs the makefile
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| − | # When complete, GotCloud ldrefine will indicate success/failure
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| − | #:[[File:LdrefineSuccess.png|700px]]
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| − | ==== Examining ldrefine Output ====
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