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, 08:36, 1 July 2014
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| View QQ plots | | View QQ plots |
| <div class="mw-collapsible-content" style="width:800px"> | | <div class="mw-collapsible-content" style="width:800px"> |
| + | :<pre>evince $OUT/assoc/single.epacts.qq.pdf&</pre> |
| [[File:Single.epacts.qq.png]] | | [[File:Single.epacts.qq.png]] |
| </div> | | </div> |
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| View Manhattan plots | | View Manhattan plots |
| <div class="mw-collapsible-content" style="width:800px"> | | <div class="mw-collapsible-content" style="width:800px"> |
− | [[File:Single.epacts.mh.png]] | + | :<pre>evince $OUT/assoc/single.epacts.mh.pdf&</pre> |
| + | [[File:Single.epacts.mh.png|900px]] |
| </div> | | </div> |
| </div> | | </div> |
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| View Zoom Plots | | View Zoom Plots |
| <div class="mw-collapsible-content" style="width:800px"> | | <div class="mw-collapsible-content" style="width:800px"> |
| + | :<pre>evince $OUT/assoc/single.zoom.22.36995620.pdf&</pre> |
| [[File:Single.zoom.22.36995620.png]] | | [[File:Single.zoom.22.36995620.png]] |
| </div> | | </div> |
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| And run EMMAX test specifying the kinship matrix | | And run EMMAX test specifying the kinship matrix |
| | | |
− | $EPACTS/bin/epacts-single --ped $IN/assoc/seqshop.ped --vcf $OUT/assoc/snps.anno.vcf.gz --out $OUT/assoc/emmax --region 22:36000000-37000000 --test q.emmax --pheno PHENO --run 2 --kinf $OUT/assoc/snps.anno.kinf | + | $EPACTS/bin/epacts-single --ped $SS/assoc/seqshop.ped --vcf $OUT/assoc/snps.anno.vcf.gz --out $OUT/assoc/emmax --region 22:36000000-37000000 --test q.emmax --pheno PHENO --run 2 --kinf $OUT/assoc/snps.anno.kinf |
| | | |
| Then the results may look similar to previous ones. | | Then the results may look similar to previous ones. |