Question: Cluster plots from categorical clustering
gravatar for jmah
20 months ago by
jmah10 wrote:


I'm trying to analyze some single cell seq data.

I have data set consisting of sets/groups of categorical data. eg. A { a,b,c,d} B {b,c,f,g} C {e,t,y,g}

I have been trying to find an R package to cluster these eg. would A+B fall in the same cluster while C clusters separately? I envision some kind of cluster plot at the end, where A, B, or C are plotted as a point in the space described by a,b,c,...etc.

I've found a few R packages eg. klaR (K-modes), cba (ROCK algorithm) but they don't seem to produce cluster plots.

Is it possible to make cluster plots from categorical data? Do you know of an R package that would allow me to do this?


clustering R • 824 views
ADD COMMENTlink written 20 months ago by jmah10

Not an expert, but isn’t this what tSNE does?

ADD REPLYlink written 20 months ago by stanley.ju0

I'm not trying to analyze traditional expression-based single cell RNAseq data. I just put that in so people know it's a biology-based question. Sorry, I realize now that that was probably pretty confusing.

ADD REPLYlink written 20 months ago by jmah10
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