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, 19:31, 19 April 2012
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| == using a VCF reference panel == | | == using a VCF reference panel == |
− | minimac --vcf --refHaps ref.vcf.gz --refSnps ref.snps.gz --haps target.hap.gz --snps target.snps.gz --rounds 5 --states 200 --prefix results | + | minimac --vcfReference --refHaps ref.vcf.gz --refSnps ref.snps.gz --haps target.hap.gz --snps target.snps.gz --rounds 5 --states 200 --prefix results |
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| == using a MaCH reference panel == | | == using a MaCH reference panel == |
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| | Reference haplotypes (e.g. from [http://www.sph.umich.edu/csg/abecasis/MACH/download/1000G-2010-06.html MaCH download page]) | | | Reference haplotypes (e.g. from [http://www.sph.umich.edu/csg/abecasis/MACH/download/1000G-2010-06.html MaCH download page]) |
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− | | <code>--vcf </code> | + | | <code>--vcfReference </code> |
| | This option specifies that the provided --refHaps file is provided in VCF format , no --refSNPs file needed. | | | This option specifies that the provided --refHaps file is provided in VCF format , no --refSNPs file needed. |
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