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fdnadist - Nucleic acid sequence Distance Matrix program


fdnadist -sequence seqsetall -method list -gamma list -ncategories integer -rate array
-categories properties [-weights properties] -gammacoefficient float
-invarfrac float -ttratio float -freqsfrom toggle -basefreq array
[-lower boolean] [-humanreadable boolean] -outfile outfile [-printdata boolean]
[-progress boolean]

fdnadist -help


fdnadist is a command line program from EMBOSS (“the European Molecular Biology Open
Software Suite”). It is part of the "Phylogeny:Molecular sequence" command group(s).


Input section
-sequence seqsetall
File containing one or more sequence alignments

-method list
Default value: F84 distance model

-gamma list
Default value: No distribution parameters used

-ncategories integer
Default value: 1

-rate array
Default value: 1.0

-categories properties
File of substitution rate categories

-weights properties

Additional section
-gammacoefficient float
Default value: 1

-invarfrac float
Default value: 0.0

-ttratio float
Default value: 2.0

-freqsfrom toggle
Default value: Y

-basefreq array
Default value: 0.25 0.25 0.25 0.25

-lower boolean
Default value: N

-humanreadable boolean
Default value: @($(method)==s?Y:N)

Output section
-outfile outfile

-printdata boolean
Default value: N

-progress boolean
Default value: Y

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