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Hello!
SPLS-DA and PLS-DA models built on our data + possible known batch effect show the models can accurately classify samples based to one of two batches (pR2Y = 0.05 & pQ2 = 0.05 based on 20 ra…
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Thanks for making this great tool! I have a clarifying question I haven't been able to find an answer to. How does EMU handle novel species?
For example, I'm working with soil microbiomes that hav…
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Hi @tpq, thank you for the wonderful CoDa methods you have implemented in propr! I read [Microbiome Datasets Are Compositional: And This Is Not Optional](https://www.frontiersin.org/articles/10.3389/f…
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# Introduction
I'm not sure if this is relevant for all of your workflows, but I was thinking about the naming conventions used in metacoder and phyloseq.
For the project I'm working on we decid…
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Hi,
I just trying to apply _diff_analysis_ function to the phyloseq object built with picrust2-predicted pathway abundance table.
The otu-table is like this:
pathway | sampleD1-10F | sampl…
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U-CIE is a great tool, so simple idea and robust implementation!
I am trying to apply U-CIE to my soil microbiome data (amplicon - 16s rRNA), especially the sample sites. After the UMAP of the com…
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你好，我有注意到在更新kolist时默认选择org=‘hsa’，如果是做微生物群落的数据应该如何选择org更符合真实情况呢
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This is because phinch throws an error on "metadata":null and locks up on the loading screen.
I'm not sure whether this is a mothur problem or a phinch problem, but here is a gnu solution that worked…
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I'm trying to install Bamm from release tag 1.7.3 (https://github.com/Ecogenomics/BamM/archive/1.7.3.tar.gz)
on a centos-8.2 system, using gcc/9.2.0 and pythton/2.7.17
I have a compilation error …
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Hi,
I am trying to apply tax_glom function on my phyloseq object. But looks like it is not working.
The dimensions of the file I am working on is 768 OTU and 201 samples
The code I used:
OT…