How can I obtain the significantly different taxa data from this Aldex plot ? (Using R)

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1

Hello !

I am trying to conduct relative difference comparison test and used Aldex2 package for the first time. (I failed to use Aldex 2 in Qiime2 ....)

As you can see, I finally got this plot in the R but I don't know how to find the specific taxa that are shown as significantly different (maybe red color).

Is there anyone who can suggest me to find the way forward ? (And also, please let me know the difference of black colored dot and gray colored dot)

48e54b00-7897-40ae-89f9-2c64290127ee

Aldex result and code
Aldex result and code1244×607 53.7 KB

Any suggestion regarding to my question would be welcomed !!

Thank you in advance.

2

Yes!

The data used to make that graph is inside of the result object.

You can preview that object in two ways:

  1. Click on the :arrow_forward: in the Data viewer
    image

  2. Run the result in a new line to print out a summary of what's inside.

Here is what to expect from the result object and what the columns mean:
https://www.bioconductor.org/packages/devel/bioc/vignettes/ALDEx2/inst/doc/ALDEx2_vignette.html#52_Explaining_the_outputs

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