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Some microbiome studies are starting to report measures of absolute abundance in addition to sequencing read counts and relative abundances. The `MicrobiomeExperiment` could/should support incorporati…
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This is a new warning being generated by the tests, and I don't think there are actually should be collinear variables here so I'm not sure what's happening.
``` r
suppressPackageStartupMessages(l…
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Hello! This is my first time using FUNGuild and I would like to know more about the ASV input table. Should I use read counts or relative abundances? I am trying to check this by opening the example O…
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I am trying to understand and explain the heatmap figures. I can see what is the difference in `1/2500` and `1/71` ? This is not well captured in the preprint and I was wondering is you can help expl…
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The first example on the [plotAbundance](https://microbiome.github.io/miaViz/reference/plotAbundance.html) reference page asks to plot "counts" assay but the figure is relative abundances. This makes …
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**Improvement Description**
This would be consistent with what is shown in the barplots and is more useful than absolute counts (e.g., if a user wants to download and generate the same plots outside …
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Please add a data table to the repo that includes the abundance, count, read data for Trichodesmium (any species), Noctiluca scintillans & any Chatonella, Heterosigma and Pseudochattonella species (fi…
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**Describe the parameter code you need**
Metabarcoding datasets usually come with relative abundances in terms of sequence reads per ASV or OTU. This is a request for terms for:
- Total abundanc…
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@visead reports:
`Both of the following examples should return results, but don't. The connection between taxonomy and dating appears to be broken`
![image](https://user-images.githubusercontent…
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Goal: Benchmark 'sourmash --track-abundance' to determine if the relative abundances reflect true abundances using a synthetic dataset with defined abundances.