Implementing differential abundance analysis

[khemlalnirmalkar]

Hi @sbslee
I am curious to know, are differential analyses tools like lefse, ANCOM, ALDX2, and/or DeSeq2 for microbiota data out of scope for Dokdo?
it would be wonderful to have them in Dokdo, if it is not possible, then never mind,

Thanks

[sbslee]

@khemlalnirmalkar,

Out of the aforementioned tools, I believe ANCOM is the only one that supports Python API via scikit-bio. Therefore, the other tools are in no doubt out of scope for Dokdo. I will consider implementing ANCOM for Dokdo, but it may take a while since it's not high priority. But as usual, thanks for the idea. I always welcome feature requests :) Please leave this issue open.

[khemlalnirmalkar]

Oh, okay, sounds great,
Thanks