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Update Tutorial.md
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jeldred committed May 4, 2016
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Expand Up @@ -115,7 +115,7 @@ create_coordinates -i merged.vcf -o coordinates
This step assumes you have already run CNVnator and that the output required for this step is stored in your analysis directory at
`/temp/cnvnator-temp/NA12877.bam.hist.root`. If you have installed SpeedSeq, CNVnator is run as part of `speedseq sv`. More details about `speedseq sv` are [here](https://github.com/hall-lab/speedseq#speedseq-sv)

You will also need to prepare a subdirectory to hold the Copynumber(cn) VCF files
You will also need to prepare a subdirectory to hold the copynumber(cn) VCF files
```
mkdir -p cn
```
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