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Hi, there,
It is easy to reproduce example of ggrarecurve, however, when I try to create the phyloseq object based on my own data, errors come out. I wonder how to create such a formal phyloseq obj…
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Hi team ecopy
I used the function $ ep.rarefy(data.frame, 'rarefy') and it return me the error:
ecopy/diversity/rarefy.py:137: RuntimeWarning: invalid value encountered in divide
rare_calc = n…
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Hi,
I´m using this tool, I can see all my qzv files too easy, but I have an issue with 3 files:
1. demux.qzv : I can´t open this file.
2. barplot: I only see a small figure of qiime2 logo, but…
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As outlined in [A field guide for the compositional analysis of any-omics data](https://academic.oup.com/gigascience/article/8/9/giz107/5572529) CoDa should be the way to do single-cell RNA seq.
I…
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Hi .. This is not an issue but sort of discussion or know-how question if you don't mind.
Any guidance on how to create PCoA while taking into account the genus level of microbiota along with othe…
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Hi @Meghana9854 @roseedwin , I just came across your amazing paper, and I wanted to implement the approach you proposed for my soil shotgun data. Looking upon your methodology, it seem you relied on a…
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Hello,
some of the examples in OMA are too complex. The examples should be clear enough without unnecessary complexity because it might a) prevent readers to get interested on the framework, and b)…
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Hi team,
I hope you are all doing well!
I have two questions here:
1. Does the pipeline do any rarefaction steps before generating the ASV table and taxonomy? If so, how to cancel those r…
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Please place an "x" in all the boxes that apply
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- [x] I have the most recent version of poppr and R
- [ ] I have found a bug
- [ ] I have searc…
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Hi,
I'm trying your tool for the first time, everything goes well when I run : ppanggolin all --fasta genomes_list.txt --cpu 40
but when I try to draw the rarefaction curve I encounter an error …