README.md

In ChiLiubio/file2meco: Transform Files to 'microtable' Object with 'microeco' Package

file2meco

Convert files of some tools to microtable object of microeco package

Install file2meco

Install file2meco package from CRAN.

if(!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")
install.packages("file2meco", repos = BiocManager::repositories())

Citation

Liu, C., Li, X., Mansoldo, F.R.P., An, J., Kou, Y., Zhang, X., Wang, J., Zeng, J., Vermelho, A.B., Yao, M., 2022. Microbial habitat specificity largely affects microbial co-occurrence patterns and functional profiles in wetland soils. Geoderma 418, 115866. https://doi.org/10.1016/j.geoderma.2022.115866

Tutorial

https://chiliubio.github.io/microeco_tutorial/file2meco-package.html

Supported tools

Currently supported tools for data conversion include: QIIME, QIIME2, HUMAnN, MetaPhlAn, Kraken2/Bracken, Ncyc, PICRUSt2, Tax4Fun/Tax4Fun2, ViromeScan, R package phyloseq and TreeSummarizedExperiment.

Contributing

We welcome any contribution ! Any idea/suggestion will be considered. By participating in this project you agree to abide by the terms outlined in the Contributor Code of Conduct.

References

• https://chiliubio.github.io/microeco_tutorial/references.html#references

ChiLiubio/file2meco documentation built on April 14, 2025, 8:28 a.m.