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Dear all,
I wanted to test this install of OPAL
```bash
conda create --name opal --yes;
conda activate opal;
conda install python=3.7 --yes;
~/miniconda3/envs/opal/bin/pip3 install cami-opal…
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Hello,
I am currently a master trainee and I am interested in using spiec-easi to infer the microbial network.
In other posts, I read that you advise to put non rarefied data in the function. If …
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Hi Ben,
I'm a bit confused about singlem.
1. “singlem summarise --input_otu_tables otu_table.csv --cluster --clustered_output_otu_table clustered.otu_table.csv”
For cluster, can I change the cluste…
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Hi @vmikk. I am finding this package very useful. I am currently trying to perform multiple rarefaction using phyloseq_mult_raref function. What I need to achieve is an average rarified table of all t…
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Hey @PietrH -
thanks for sharing your analysis code for your TDWG poster.
Can you help me understand how you did the geographic grouping?
From
https://github.com/PietrH/tdwg2021-estimat…
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The tools "SNPFinder" (https://usegalaxy.no/root?tool_id=toolshed.g2.bx.psu.edu/repos/chrisd/snpfinder/snpfinder/0.1.0), "RarefactionAnalyzer" (https://usegalaxy.no/root?tool_id=toolshed.g2.bx.psu.edu…
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Hi @yxia0125. I was wondering if you have a similar function in R that essentially gives out an averaged rarified table using a phyloseq object in R. I have used a couple of functions, but they have v…
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## rarefraction - seq.default error
Hello,
When I try to run rarefraction on my data it returns the following error. Can you please help?
imm_raref = repDiversity(mydata$data, "raref", .extra…
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- [x] Add metadata for clean datasets
- [x] Analyze data using dataset on individual plants
- [x] Linear models with traits as response, distance to core, HCN, and their interaction as predictor…
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**Is your feature request related to a problem? Please describe.**
Current summaries provide results with no description of what each of the methods represent. Include some standard language before e…
cleme updated
2 years ago