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#CPXY - complexity measure for flanks of length l defined by option -l, default is 25
#CPXY - complexity measure for flanks of length l defined by option -l, default is 25
arf -a complexity 1000g.vcf -g genome.fa -l 30
arf -a complexity 1000g.vcf -g genome.fa -l 30
== In development ==
#-c option directs the output to STDOUT
arf -a vartype 1000g.vcf
#-o option specifies an output file name
arf -a complexity 1000g.vcf -g genome.fa -l 30 -o paltum.vcf
#input VCF file can be gzipped
arf -a complexity 1000g.vcf.gz -g genome.fa -l 30 -o paltum.vcf
== Command Line Options ==
== Command Line Options ==
