how to identify the two or more variables contributing to the cluster in PCoA plots using emperor

[balaTHLkuopio]

Hi,

we have a two seperate cluster in PCoA 3D plot and it seems like none of the variables(such as age, food habit, etc.. when used alone to visualize) couldnt explain the clear cluster and it might be due to the combined effect of the variables which makes that cluster. Is there any ways in emperor that we can include more than one or two variables to visualize the 3D plot in order to explain that cluster???

Any help will be very useful. Thanks in advance.

Bala

[ElDeveloper]

@balageek, there's not an automated way to do this right now, however the two ways I can think of are:

• Combining metadata categories from the command line using the -b option.
• Using color, size and transparency to distinguish between metadata categories (this would have to be done from the GUI).

On (Jun-26-14| 6:13), balageek wrote:

Hi,

we have a two seperate cluster in PCoA 3D plot and it seems like none of the variables(such as age, food habit, etc.. when used alone to visualize) couldnt explain the clear cluster and it might be due to the combined effect of the variables which makes that cluster. Is there any ways in emperor that we can include more than one or two variables to visualize the 3D plot in order to explain that cluster???

Any help will be very useful. Thanks in advance.

Bala

---

Reply to this email directly or view it on GitHub: https://github.com/biocore/emperor/issues/275

[antgonza]

That's a solution but I think a nicer/cleaner one will be to add biplots against environmental features.

[ElDeveloper]

I'll close this, as @antgonza's suggestion would be implemented as part of #356