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, 22:32, 7 August 2013
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| ====== From an Annotated VCF File ====== | | ====== From an Annotated VCF File ====== |
− | If --groupFile option is '''NOT''' specified, '''rareMETAL''' will look for an annotated vcf file as blue print for variants to group. Users are also allowed to generate a vcf file based on the superset of variants from pooled samples, and annotate outside rareMETAL. Then, annotated vcf file can be used as input for rareMETAL for gene-level meta-analysis, or group files can be generated based on the annotated vcf file. Detailed description of these options are [[Rare-Metal#Group_Rare_Variants_from_Annotated_VCF|available]]. There are also examples of this usage at the bottom of this page. | + | If --groupFile option is '''NOT''' specified, '''rareMETAL''' will look for an annotated vcf file as blue print for variants to group. Users are also allowed to generate a vcf file based on the superset of variants from pooled samples, and annotate outside rareMETAL. Then, annotated vcf file can be used as input for rareMETAL for gene-level meta-analysis, or group files can be generated based on the annotated vcf file. Detailed description of these options are [[Rare-Metal#Group_Rare_Variants_from_Annotated_VCF|available]]. There are also [[Rare-Metal#Example_Command_lines|'''examples''']] of this usage at the bottom of this page. |
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| ==== QC Options ==== | | ==== QC Options ==== |