mkatari-bioinformatics-august-2013-clustering
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| Both sides previous revisionPrevious revision | Next revisionBoth sides next revision | ||
| mkatari-bioinformatics-august-2013-clustering [2014/12/11 15:11] – [K-means] mkatari | mkatari-bioinformatics-august-2013-clustering [2014/12/11 15:24] – [K-means] mkatari | ||
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| Line 83: | Line 83: | ||
| colnames(scaledSigGenes)=colnames(sigGenes.normalized) | colnames(scaledSigGenes)=colnames(sigGenes.normalized) | ||
| - | #now to run k-means | + | #now to run k-means, in this case we are starting with 2 cluster. |
| - | SigGenes.kmeans.2 = kmeans(scaledSigGenes, | + | #just like for heirarchical clustering, we have to first transpose the data so compare genes. |
| + | |||
| + | SigGenes.kmeans.2 = kmeans(t(scaledSigGenes), 2) | ||
| + | |||
| + | #a plot of the groups | ||
| + | plot(SigGenes.kmeans.2$centers[1, | ||
| # a measure of how well the clustering has performed | # a measure of how well the clustering has performed | ||
mkatari-bioinformatics-august-2013-clustering.txt · Last modified: 2015/06/17 13:26 by mkatari