R help - Sep 2019 - help

Hi together,

I?m new using R and have a question concerning the Silhouette coefficient. I?ve
clustered very easy objects with Affinity Propagation.
My data just has one numeric attribute.

apres <- apcluster(negDistMat(r=2), data, details=TRUE)
show(apres)



This worked very well. To compare with other algorithms I want to know the
Silhouette coefficient.
The function I use for the other algorithms doesn?t work for AP (clvalid or
fviz_nbclust).
So my question is, how I can get the Silhouette coefficient for the clustering
with AP?

Thank you very much in advance for your help.

You can use the vector of integer cluster numbers with silhouette()
from the cluster package.

https://www.rdocumentation.org/packages/cluster/versions/2.1.0/topics/silhouette


But note that silhouette as an assessment metric makes roughly the
same assumptions that k-means does about the data structure, and may
not return useful results with other clustering methods.

Sarah

On Mon, Sep 9, 2019 at 12:01 PM Nicola Fiedler <nicolafiedler at gmx.de>
wrote:
>
> Hi together,
>
> I?m new using R and have a question concerning the Silhouette coefficient.
I?ve clustered very easy objects with Affinity Propagation.
> My data just has one numeric attribute.
>
> apres <- apcluster(negDistMat(r=2), data, details=TRUE)
> show(apres)
>
>
>
> This worked very well. To compare with other algorithms I want to know the
Silhouette coefficient.
> The function I use for the other algorithms doesn?t work for AP (clvalid or
fviz_nbclust).
> So my question is, how I can get the Silhouette coefficient for the
clustering with AP?
>
> Thank you very much in advance for your help.
>
-- 
Sarah Goslee (she/her)
http://www.numberwrigtht.com