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.
Basic Information
| Repository |  https://www.bioconductor.org/packages/release/bioc/html/microSTASIS.html |
| Documentation | https://www.bioconductor.org/packages/release/bioc/manuals/microSTASIS/man/microSTASIS.pdf |
| Seminar | Alfonso Benítez Páez (IATA, CSIC) presents the tool microSTASIS |
| Main publication (DOI) | 10.1093/bib/bbac055 view |
| Contact email | bio.pedro.technology@gmail.com |
| Authors/Maintainers | Alfonso Benítez Páez |
| Type of application | R/python package |
| Programming languages | R |
| Keywords | Omics, Computational Methods, Data Analysis, Artificial Intelligence, Machine Learning in Biology, Applications of Computational Biology, Statistical Methods for Biology, Multivariate statistics, Non-parametric statistics, Microbial communities, Metagenomics, Amplicon Sequencing, Clinical data |
Technical details
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| Software compatibility | Linux, Mac, Windows |
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| Type of containerization | Conda |
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Statistics
| Unique users (last 12 months) | |
| Unique users (since first release) | |
| Software downloads (last 12 months) | 1000-10000 (2459 as of 15/10/2026) |
| Software downloads (since first release) | 1000-10000 (7857 as of 15/10/2026) |
| Jobs submitted (last 12 months) | |
| Jobs submitted (since first release) | |
| Repository clones (last 12 months) | |
| Repository clones (since first release) | |
| Citations (last 12 months) | <100 (~1 as of 15/10/2026) |
| Citations (since first release) | <100 (6 as of 15/10/2026) |
| Early-stage researcher effort (development) | Master students |
| Early-stage researcher effort (maintenance) | Master students |
| Technician-supported effort (development) | |
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