Plot clusters in same scale (Y axis)

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2012-07-03
2013-05-20
  • waseem haider
    waseem haider
    2012-07-03

    Hi
    I am comparing 2 treatment conditions and want to see the graphs of  same clusters (having same patterns) from 2 treatments.
    I am using log2 normalized counts. Data in one sample ranges from -6 to 6 and -10 to 10 in second. I was wondering on "how to plot the two clusters in same scale? i.e both ranging from -10 to 10.
    Moreover I have already separated the clusters with my codes in to different classes like UU ( Up regulated in both conditions, DU, UD …… but when I use MeV the number of genes is different in different groups and clusters are not well defined. What parameters I should try? I am using QT with Pearson Cor and number of clusters = 8 (max possible combinations).
    Thanks in advance