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Hi,
Is it possible to use a relative abundance table? I don't have OTU counts abundance table,and just have a relative abundance table( sum is 1).
Thanks!
wfgui updated
3 months ago
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Hi Daniel,
I'm currently running into an error when trying to make the effect size matrix with the cooccur package. I have tried two ways:
1.
`my_cooccur
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Hi @nickallsing @nallsing-salk
Very interesting research you guys did. I was trying to replicate your methodology but then I figured there were no qiime analysis scripts. I managed to import the mod…
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## Is your feature request related to a problem? Please describe
For microbiome/metagenomic screening analysis, typically the main file type is an OTU table. We already have this with Kraken, but d…
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Hello,
I have a question about performing LEfSe with trans_diff$new. My microeco version is 1.9.0. My dataset has two treatments (two groups), and each has two subgroups (high frequency and low fre…
NNTLe updated
3 months ago
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Hi,
First of all thanks for developing this amazing package! I would like to use DeSeq2 negative binomial analysis for differential abundance and then use compare_groups and lastly plot a metacode…
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Hi again Chi!
I'm using your script for doing a dbRDA, but when doing it with vegan I do not obtain the same results. Is there any kind of transformation or scalation applied to the data? because I…
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(copied from https://github.com/sourmash-bio/sourmash/issues/461#issuecomment-1993390314)
Hi Titus @ctb , I don't know whether I could ask the following questions related to this issue, anyway....
…
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We would like to use lotus2 to generate inputs for ML models. We are facing the issue, that for each run a different assignment of ASVs is done. So ASV1 does not correspond to the same sequence for ea…
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Hi @DaliangNing ,
I'm using the `RC.pc` function witch works well on my raw data. But when i rarefy and normalized my data with log and hellinger, I have the error:
> Error in checkForRemoteEr…