Cluster plots from categorical clustering
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2.5 years ago
jmah ▴ 20

Hi,

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?

Thanks!

R clustering • 1.2k views
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Not an expert, but isn’t this what tSNE does?

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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.

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