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Last update on 04. Dec 2013 .
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User Defined Distance Matrix

OCCURRENCE

ARB_DIST

 

DESCRIPTION

Allows the user to define distances between different bases. E.g. An A-T should get a smaller difference as an A-G, so the corresponding matrix elements should be set to 1.0 and 2.0.

 

NOTES

Before the algorithm starts, all matrix values will be multiplied by a factor, so that the average matrix value (except the diagonal) gets a value of one !!!

To save a user matrix use <Properties/Save Properties> menu item.

 

BUGS

Works only with some distance corrections:

none    similarity      jukes_cantor

Works only with dna

If enabled only ACGTU/GAPS bases are calculated.