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proximities
2004 Oct 13
1
random forest -optimising mtry
...yet a lot about these data,
I have looked a lot on my spectra, and I believe these proximities to be
realistic.
Then I ran the tune RF function(step factor 1.5), I got out an mtry=63.
A new forest having this mtry and 2500 trees gave me perfect
classification as well, but the relation between proximitiy values
changed a lot:
res
op12 op13 op14 op23
op24 op34
[1,] 0.1092702 0.117489 0.09696328 0.08725208 0.08495621 0.06506148
This is what makes me think that I have overtuned my second forest...So
how should I choose mtry?
Best regards,
Ute