this may be trivial to you all but
We have a system of about 24000 probes. Filters reduce that to about 2000. Statistical q reduces that to about 200.
If we wish to explore hierarchical and k-means clustering, is it most "proper" to use the 2000 set or the 200 set?
Sorry, this is difficult to comment on as everything depends on your study and how and what you are asking.
I would recommend you to talk a bioinformatician for help.
Thanks for using MeV
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