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Hi Kasper,
I would like to export a list of the core microbiome , is that possible?
I am having a problem with the rarefaction curve, I have processed my data through mothur and the taxa I have …
am750 updated
3 years ago
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Hi,
I have experienced that in diversity analysis done using qiime2, a rarefaction [normalization] step was recommended. However, in animalcules, no such step is performed. I am confused about…
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We should add bloom filtering to the analysis pipeline. @wasade, is there some code in Qiime2 for the bloom filtering? BTW is the filtering removing some sequences, a percentage of those sequences or …
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Hi Romain,
In some situations the individual index used for multiplexing sequences can vary in size between individuals.
This will lead, after index removal, to reads with different size depending…
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Hi,
I trying to implement the immunarch tool for my data. While the tutorial looks very clear, I got an immediate issue with importing my data.
--------------------------------------------------…
lejim updated
3 years ago
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## 🐛 Bug
Hi there,
I stumbled upon a bug in the rarefaction diversity estimation.
In
https://github.com/immunomind/immunarch/blob/9dce2ea78f4fb15557e17664910f14c47caa8e63/R/diversity.R#L409-L…
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I have noticed in my analyses that samples with high sequencing depths tend to have more diversity, even though I perform rarefaction after DADA2 analyses.
To test this issue more consistently, I …
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Hey,
thanks for the package. The calculation of rarefaction curves is so much faster now.
I am having one issue though:
calling `scale_fill_discrete` or other ggplot arguments to change the le…
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Hi，after solving the problem with the data entry, I get stuck in the process of Alpha diversity as below. You assistance will be very much appreciated！
Error executing process > 'alpha_diversity (eve…