Similar samples in RNAseq
I have a data set of 5 RNAseq samples and want to see which samples are close to stem cell population corresponding to one sample. What should be the best option to perform such analysis?
If I have to perform unsupervised clustering then will SD will be good parameter to select most variable genes?
Thanks
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Try @Kevin's guide for PCA plotting: PCA plot from read count matrix from RNA-Seq
Have you looked at Pearson correlation between the samples of interest?