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For some of my projects, I find that CSS normalization decreases the variance in library size compared to raw sequencing depth. I am assuming this is one of the objectives of CSS normalization.
In …
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Abundance alteration of nondominant species in fecal-associated microbiome of patients with SAPHO syndrome - Zhen _et al_ - BMC
https://bmcmicrobiol.biomedcentral.com/articles/10.1186/s12866-021-0222…
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Longitudinal profiling of the microbiome at four body sites reveals core stability and individualized dynamics during health and disease – Xin Zhou – Cell Host & Microbe
https://www.cell.com/cell-hos…
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Add functions to internally compute correlations between OTU/ASV counts (transformed) and gene expression (transformed). After importing expression profiles and ASV/OTU counts, admins must be able to …
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Hi,
thanks for this great package! I am trying to use SAFE for the annotation of metadata on a low-dimensional graph representation of microbiome abundance information (similar to: https://genomebi…
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Hi
I can't seem to upload my otu_table.biom file on the Microbiome Explorer
it sent the Error
```
Warning: Error in if: missing value where TRUE/FALSE needed
45:
2: shiny::runApp
1: …
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Oral microbiome homogeneity across diverse human groups from southern Africa: first results from southwestern Angola and Zimbabwe – Vítor Araújo – BMC Microbiology
https://bmcmicrobiol.biomedcentral.…
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U-CIE is a great tool, so simple idea and robust implementation!
I am trying to apply U-CIE to my soil microbiome data (amplicon - 16s rRNA), especially the sample sites. After the UMAP of the com…
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PandaGUT provides new insights into bacterial diversity, function, and resistome landscapes with implications for conservation – Guangping Huang et al. – Microbiome 2023
https://microbiomejournal.b…
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Systematic analysis of gut microbiome reveals the role of bacterial folate and homocysteine metabolism in Parkinson’s disease - Rosario et al - Cell Reports
https://linkinghub.elsevier.com/retrieve/p…