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--longOutput --tabulateHits --hitsCutoff 1.0e-05 --prefix $yourLocaPath/raremetal_tutorial/results/
--longOutput --tabulateHits --hitsCutoff 1.0e-05 --prefix $yourLocaPath/raremetal_tutorial/results/
* Please refer to the documentation for detailed description of output format. [http://genome.sph.umich.edu/wiki/Rare-Metal#Output_Files '''RareMETAL Results''']
* Please refer to the documentation for detailed description of output format. [http://genome.sph.umich.edu/wiki/Rare-Metal#Output_Files '''RareMETAL Results''']
* RareMETAL also allows users to output an VCF file of the super set of all variants and use their favorite annotation tool to annotate it and then come back to RareMETAL for the gene-level meta analysis. --writeVCF is the option to use. Please refer to [http://genome.sph.umich.edu/wiki/Rare-Metal#Generate_a_VCF_File_to_Annotate_Outside_of_Rare_Metal '''Annotated outside RareMETAL''']
