Most RNA-seq analysis tools include some sort of cluster visualization options like PCA or MDS plots to see outlier samples. However, none of them seem to include functions to output any clustering statistics. Is there a specific reason why? Am I just not seeing them?
I was trying to use silhouette to do that. Is that appropriate? Are there good alternatives I should be looking into?
I was trying to use silhouette to do that. Is that appropriate? Are there good alternatives I should be looking into?