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biocore / songbird

Vanilla regression methods for microbiome differential abundance analysis
BSD 3-Clause "New" or "Revised" License
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songbird 2? #148

Open Alxdu opened 3 years ago

Alxdu commented 3 years ago

Are there plans to update songbird to work with latest and upcoming versions of Qiime2?

This is a great tool. I can't always get it to work with my data (model fitting is not always easy to land) but I keep trying :)

Thanks

mortonjt commented 3 years ago

Thank you for your comments. Yes, we are in the process of developing a second version, where we'll ditch Tensorflow in favor of Stan. Can't give a timeline right now, since its still in active development.

jsabinop commented 12 months ago

Hey, just wondering if there are any updates on a Songbird compatible with newer versions of Qiime2

Cheers

mortonjt commented 12 months ago

We actually have another iteration that is much more accurate. See below for the preprint and github.

https://github.com/biocore/BIRDMAn

https://www.biorxiv.org/content/10.1101/2023.01.30.526328v1

But I’ll be honest, it is not easy to setup and run, since it requires a compute cluster. So we wont be able to have support for qiime2 in the near future.

On Fri, Jul 7, 2023 at 4:47 AM Joana Sabino Pinto @.***> wrote:

Hey, just wondering if there are any updates on a Songbird compatible with newer versions of Qiime2

Cheers

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