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lczech / gappa

A toolkit for analyzing and visualizing phylogenetic (placement) data
GNU General Public License v3.0
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Any chance to make a QIIME2 plugin for gappa? #8

Open yanxianl opened 5 years ago

yanxianl commented 5 years ago

Hi Lucas,

I just read your paper on Scalable methods for analyzing and visualizing phylogenetic placement of metagenomic samples, which illustrated the benefits of incorporating phylogeny into the analysis of microbiome data. The paper is well-written and easy to digest.

Just out of curiosity, is there any chance that you would develop a QIIME2 plugin to implement the methods introduced in the paper? I believe that a QIIME2 plugin would make it easier to use the tool and expose it to more researchers working on the microbiome data, though it would certainly add extra workload to you and your coauthors.

In case you are interested, here the link to QIIME2 plugins which has many applications now.

Best, Yanxian

lczech commented 4 years ago

Hi Yanxian,

sorry that I did not respond to this earlier... Yes, QIIME plugins are in my backlog of ideas, but I have no idea when I will get to do this. So, for now, I hope that you can also work with gappa as a stand-alone tool.

Let me know if you have any more questions or suggestions! I am going to leave this issue open as a reminder to myself to get back to that in the future ;-)

Lucas

lczech commented 1 year ago

Hi @yanxianl,

by the way, gappa is available on conda since a while now. Still no QIIME plugin though :-(

Cheers Lucas