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Hi,
Thanks for developing this tool.
For genome classification, how were the 10 marker genes selected?
Thanks!
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Having issues with pplacer step - it seems everything else is working, and the check install step works just fine so I don't think it's an install issue...
I have tried giving the command different…
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On the NMDC data portal, James Stegen's study "Riverbed sediment microbial communities from the Columbia River, Washington, USA" has all samples that start with GW-RW listed as sediment samples.
http…
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Dear developers,
Thank you for this tool!
I was wondering if there is an example file for using the `patway_annotation` function in the following case:
```
# Use case 1: Annotating pathway inf…
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Hello, I would like to enquire if the method for estimating alpha diversity in breakaway can be applied to microbial-related meta-analysis studies, such as the comparison of endophytic microbial commu…
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Add a slot called `ncbi_taxon_id` to capture the host taxonomy ID as present in GOLD, and other sources possibly.
For example, let's look at `Gb0291745` on the GOLD website: https://gold.jgi.doe.go…
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[Yue-Clayton similarity index (2005)](https://www.tandfonline.com/doi/abs/10.1080/STA-200066418) is an interesting emerging similarity measure used for microbial communities.
Consider adding to mi…
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Hi @ArnaudBelcour,
I have been having some issues running m2m_analysis powergraph. Using genome-scale metabolic models for almost 3300 gut microbes, I am trying to visualize the minimal communities…
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We would like to start more regular (call) meeting of the GTN to discuss the recent changes and future directions for the Training Material.
We thought we could combine these meetings with the GTN Co…