Problem to load

[microsud]

Problem to load

[gutmicrobe]

Thanks for using out tool. The error is likely caused by not having Bioconductor repos accessible for Biostrings, microbiome, phyloseq in your linux environment.
Try the following order of installation.

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("phyloseq")
BiocManager::install("microbiome")

and then install mirobiomeutilties from github.
Alternatively, I would like to direct your attention to the new microbiome data science framework (recommended) that is actively maintained here https://microbiome.github.io/OMA/