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#Please insert up references in the next lines (line starts with keyword UP)
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#Please insert subtopic references (line starts with keyword SUB)
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# Hypertext links in helptext can be added like this: LINK{ref.hlp|http://add|bla@domain}
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#************* Title of helpfile !! and start of real helpfile ********
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TITLE Column statistic
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OCCURRENCE ARB_NT/SAI/Create SAI from Sequences/Positional Variability ...
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DESCRIPTION Calculates the base and frequencies positional variability for
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each column independently.
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It uses the parsimony method to find the minimum number of
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mutations for each site.
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The result can be used by:
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- Parsimony to weight the characters properly
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- Neighbour joining to estimate the distances
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'.' Less than 10% valid characters
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The higher the number the more conserved
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eg .'7' half number of mutations than '5'
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NOTES Use the biggest tree you have.
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NOTE @@@ Compare it to consensus and max frequency.
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WARNINGS if you have only small trees (<100 species), forget this
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TITLE Column statistic
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OCCURRENCE ARB_NT/SAI/Create SAI from Sequences/Positional Variability ...
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DESCRIPTION Calculates the base and frequencies positional variability for
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each column independently.
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It uses the parsimony method to find the minimum number of
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mutations for each site.
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The result can be used by:
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- Parsimony to weight the characters properly
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- Neighbour joining to estimate the distances more accurately.
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'.' Less than 10% valid characters
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'0123456789ABCDE...' The higher the number the more conserved the site is.
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Stepping 2 position rightwards in the list of given char,
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means half number of mutations (eg .'7' means "half number
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of mutations compared to '5'")
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NOTES Use the biggest tree you have.
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NOTE @@@ Compare it to consensus and max frequency.
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WARNINGS if you have only small trees (<100 species), forget this