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#annotates variants
#annotates variants
##INFO=<ID=,Number=1,Type=string,Description="Annotates variant by types SNP, MNP, INDEL, SV, CR">
##INFO=<ID=VTYPE,Number=1,Type=string,Description="Annotates variant by types SNP, MNP, INDEL, SV, CR">
#-l option defines the length in which to differentiate INDELs and SVs
#-l option defines the length in which to differentiate INDELs and SVs
arf -a vartype 1000g.vcf -l 30
arf -a vartype 1000g.vcf -l 30
#compute allele balance
##INFO=<ID=AB,Number=1,Type=float,Description="Allele Balance computed from genotype likelihoods">
#requires PL/GL and DP in the genotype fields
arf -a allelebalance 1000g.vcf
== Command Line Options ==
== Command Line Options ==
