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, 17:54, 25 November 2013
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| ==== QC Options ==== | | ==== QC Options ==== |
− | * '''RAREMETAL''' allows filtering of variants from individual studies by their HWE pvalue and call rate, which are generated as part of the output from '''rareMetalWorker''' or [http://genome.sph.umich.edu/wiki/Rvtests '''rvtests''']. | + | * '''RAREMETAL''' allows filtering of variants from individual studies by their HWE pvalue and call rate, which are generated as part of the output from '''RAREMETALWORKER''' or [http://genome.sph.umich.edu/wiki/Rvtests '''rvtests''']. |
| * To filter by HWE p-values, --hwe option should be used. The default is 0.0, which means not filtering any of the variants. | | * To filter by HWE p-values, --hwe option should be used. The default is 0.0, which means not filtering any of the variants. |
| * To filter by call rate, --callRate option can be specified. The default is 0.0, which allows no filtering utilized. | | * To filter by call rate, --callRate option can be specified. The default is 0.0, which allows no filtering utilized. |