microSTASIS

The toolkit ‘µSTASIS’, or microSTASIS, has been developed for the stability analysis of microbiota in a temporal framework by leveraging on iterative clustering. Concretely, the core function uses Hartigan-Wong k-means algorithm as many times as possible for stressing out paired samples from the same individuals to test if they remain together for multiple numbers of clusters over a whole data set of individuals. Moreover, the package includes multiple functions to subset samples from paired times, validate the results or visualize the output.

Info

Members (researchers): Alfonso Benítez Páez

Research Groups: Bioinformatics, Computational Biology and Data Science

Contact Email: bio.pedro.technology@gmail.com

Tool Repository: https://www.bioconductor.org/packages/release/bioc/html/microSTASIS.html

Documentation: https://www.bioconductor.org/packages/release/bioc/manuals/microSTASIS/man/microSTASIS.pdf

Publications DOI: 10.1093/bib/bbac055

Institution: Instituto de Agroquímica y Tecnología de Alimentos (IATA)

Application domain:

Amplicon Sequencing, Clinical data, Machine Learning in Biology, Metagenomics, Microbial Communities, Multivariate statistics, Non-parametric statistics

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