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Hi there,
I am currently dealing with a dataset of 16S OTUs from sediment of two Antarctic cruises. I notice that in some of the phyloseq tutorials, the following is used:
```
dds1 = phyloseq_to_des…
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Hey!
I am following the qurro tutorial as a standalone tool. I generated the ordination.txt file by deicode. But when I run the qurro command, the output index.html doesn't load anything.
I cannot…
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Hi, I was trying to run nested PERMANOVA in vegan but the results I got were different from those from the biodiversityR and PRIMER-7 in terms of the F statistic for the "fixed" effect. Did I use a wr…
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PERMANOVA and Adonis currently only support one-way group comparisons in `q2-diversity`.
However, the [vegan-R versions](http://cc.oulu.fi/~jarioksa/softhelp/vegan/html/adonis.html) accept function…
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Hi,
I had an experiment comparing the performance of two diets for fish. Each diet was randomly allocated to triplicate tanks each containing 90 fish. The intestinal contents of fish were collected…
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## References
`testthat` [docs](https://testthat.r-lib.org/reference/index.html)
Hadley's [breakdown](http://r-pkgs.had.co.nz/tests.html)
## ToDo
- [x] Add a test for ordination
- [x] Add a…
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Hi @joey711
Thanks again for your previous help. Now, I am trying to do PERMANOVA using the "adonis" function to see if ASVs clustered separately for 3 different vendors (CR, JAX and TAC) has stat…
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I am unable to find a python implementation of permdisp, and it seems like it fit well in scikit-bio and would be useful in conjuction with permanova which is already present. There is a good descript…
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I'm wondering how I can transform my phyloseq data in the right format so I can investigate the top factors that separating the groups.
This doesn't work seem to work:
pseq.rel
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Hi Frederik,
To print idented rows bold, I used markdown code and this worked for the docx version:
```r
colnames(df)