[R-sig-eco] constrained cluster analysis

[Gavin Simpson]

On Wed, 2011-07-20 at 22:43 +0300, Evagelopoulos Thanasis wrote:
> Hello,
> 
> I want to do a constrained cluster analysis with R, if possible.
> 
> However, the only function that I know, i.e. the chclust function of
> the rioja package produces dendrograms with a y axis that is
> apparently not in the scale 0-1 of the distance measure used.
> 
> The "stratigraphically constrained clustering" in PAST software does
> produce dendrograms with y axis scaled between 0 and 1. Can this
> somehow be done with R?
> 
> My data are from a series of stations across an environmental
> gradient.
> 
> Thank you!
> 
> Athanasios Evagelopoulos

You don't provide even the bare minimum information to help you. The
default method is CONISS, which forms constrained clusters that minimise
within cluster sums of squares. That metric may be used on the axis, not
the fusion "distance".

chclust has CONSLINK too which might work better for you, but it is hard
to tell...

What code did you use?

G
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