Man page - phipack-profile(1)

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Package: phipack
apt-get install phipack

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phipack-profile - PHI test and other tests of recombination

Phi [ -f|-s|-r ] Filename [ -t ] AlignmentType

Input file not specified!!! (use -f |-r|-s)

[-w #] [-k #] [- v] [-n #] [-m #]

	-f : Filename = FASTA format
	-s : Filename = Strict phylip file
	-r : Filename = Relaxed phylip file

-t : AlignmentType = D|A|O where D=DNA

A=AA and O=OTHER [default DNA]

	-w : # = Change default window size for PHI [default w = 100]
	-v : Verbose [default = FALSE]
	-n : # = Change scanning size for regions to test [default n = 1000]
	-m : # = Step size for profile method [default m = 25]