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, 13:47, 30 June 2014
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| Let's run a single-variant association analysis using a score test. | | Let's run a single-variant association analysis using a score test. |
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− | $EPACTS/bin/epacts-single --ped $IN/assoc/seqshop.ped --vcf $OUT/assoc/snps.anno.vcf.gz --out $OUT/assoc/single --region 22:36000000-37000000 --test b.score --pheno PHENO --run 2 | + | $EPACTS/bin/epacts-single --ped $SS/assoc/seqshop.ped --vcf $OUT/assoc/snps.anno.vcf.gz --out $OUT/assoc/single --region 22:36000000-37000000 --test b.score --pheno PHENO --run 2 |
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| After running it, you will see EPACTS output files by looking at | | After running it, you will see EPACTS output files by looking at |
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| cat $OUT/assoc/emmax.epacts.top5000 | | cat $OUT/assoc/emmax.epacts.top5000 |
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| == Run Groupwise Test == | | == Run Groupwise Test == |