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Revision as of 16:02, 3 October 2012
, 16:02, 3 October 2012→Reference Haplotype Set
; --vcfReference
; --vcfReference
: This option specifies that the provided --refHaps file is provided in [http://www.1000genomes.org/wiki/Analysis/vcf4.0 VCF format] , no --refSNPs file needed.
: This option specifies that the provided --refHaps file is provided in [http://www.1000genomes.org/wiki/Analysis/vcf4.0 VCF format] , no --refSNPs file needed.
; --vcfstart
: This option specifies the start position for chunk based imputation
; --vcfend
: This option specifies the end position for chunk based imputation
; --vcfwindow
: This option specifies the size of the buffer region (in bp) to add on each side for chunk based imputation to avoid edge effects. These buffers are not included in the output files.
; --snpAliases [filename]
; --snpAliases [filename]
