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This commit https://github.com/microbiome/OMA/commit/207952f25fc7283c0adb3e6141fad28865a874a6 introduced a failure of build. See the comments in the commit.
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I think @fbastian would be surprised to find himself as the representative for the NCBI Taxonomy
http://bioregistry.io/registry/ncbitaxon
![image](https://user-images.githubusercontent.com/50745…
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If sample names are strings of numbers and the name of a sample starts with a zero, then that sample will be dropped without any warning or error when calling `plot_bar()`. Here is a minimal working e…
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Hi,
I recently went to a talk by Dr. Susan Holmes and she convinced me to transform my data to ranks rather than using pure count data or proportions for downstream analyses (particularly creating ne…
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Virify fails to pull the hmmer singularity image:
ERROR ~ Error executing process > 'annotate:hmmscan_viphogs (1)'
Caused by:
Failed to pull singularity image
command: singularity pull --…
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# Public Data set
| Dataset | Sparsity (%) |
|:--------|-------------:|
| amgut1_data | 30.40 |
| amgut2_data | 34.60 |
| baxter_crc_data | 27.78 |
| crohns_data | 1.00 |
| glne007_data | 58.88…
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Listening on http://127.0.0.1:6564
Warning in .refineParameters(extra[[idx]], se) :
no 'reducedDims' with non-zero dimensions for 'ReducedDimensionPlot'
Warning: Error in get: object '.SigLength'…
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Hi,
I have been using the same script many times with the same data and never had any problems, but lately it seems like `tax_table` function is not working anymore for me.
I keep having error …
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Hi Benjamin,
First of all, I love the idea of statistically removing contaminants and in general, the promotion of including controls in microbial studies.
I am struggling a bit with a very low …
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Hi,
I've encountered a rather peculiar software issue involving the `phyloseq` package and the `lme4` package when analyzing longitudinal microbiome data. Below, please find a reproducible example …