HOMINID specifications


Unique identifier OMICS_14059
Alternative name HOst-Microbiome INteraction IDentification
Software type Pipeline/Workflow
Interface Command line interface
Restrictions to use None
Input data Host genetic variation data, microbiome composition data
Input format OTU/taxon table format, modified VCF file format
Output data Correlations between host genetic variation (SNPs) and microbiome taxonomic abundances
Output format VCF file format
Operating system Unix/Linux, Mac OS, Windows
Programming languages Python
License MIT License
Computer skills Advanced
Stability Stable
Requirements mpi4py, numpy, pandas, SciPy, scikit-learn, scikits.bootstrap
Maintained Yes


  • Primates
    • Homo sapiens



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  • person_outline Ran Blekhman <>

Publication for HOst-Microbiome INteraction IDentification

HOMINID institution(s)
Department of Genetics, Cell Biology, and Development, University of Minnesota, Minneapolis, MN, USA; Department of Ecology, Evolution, and Behavior, University of Minnesota, Minneapolis, MN, USA; Departments of Statistical Science, Mathematics, and Computer Science, Duke University, Durham, NC, USA; Department of Computer Science and Engineering, University of Minnesota, Minneapolis, MN, USA; Biotechnology Institute, University of Minnesota, Minneapolis, MN, USA
HOMINID funding source(s)
This work is supported in part by funds from the University of Minnesota College of Biological Sciences, The Randy Shaver Cancer Research and Community Fund, Institutional Research Grant #124166-IRG-58-001-55-IRG53 from the American Cancer Society, and a Research Fellowship from The Alfred P. Sloan Foundation. This work was facilitated in part by computational resources provided by the Minnesota Supercomputing Institute.

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