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@biocore

biocore

Collaboratively developed bioinformatics software.

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  1. gneiss gneiss Public

    compositional data analysis toolbox

    Jupyter Notebook 60 27

Repositories

Showing 10 of 91 repositories
  • kl-metapool Public

    Jupyter notebooks to assist with sample processing

    biocore/kl-metapool’s past year of commit activity
    Python 9 MIT 20 56 (2 issues need help) 5 Updated Jan 7, 2026
  • microsetta-interface Public

    The Microsetta participant facing user interface

    biocore/microsetta-interface’s past year of commit activity
    Jinja 1 BSD-3-Clause 17 44 5 Updated Jan 6, 2026
  • microsetta-private-api Public

    A private microservice to support The Microsetta Initiative

    biocore/microsetta-private-api’s past year of commit activity
    Python 6 BSD-3-Clause 19 63 1 Updated Jan 6, 2026
  • emperor Public

    Emperor a tool for the analysis and visualization of large microbial ecology datasets

    biocore/emperor’s past year of commit activity
    JavaScript 54 48 63 1 Updated Jan 5, 2026
  • biom-format Public

    The Biological Observation Matrix (BIOM) Format Project

    biocore/biom-format’s past year of commit activity
    Python 96 93 25 3 Updated Dec 23, 2025
  • pysyndna Public

    Python implementation and extension of SynDNA ("a Synthetic DNA Spike-in Method for Absolute Quantification of Shotgun Metagenomic Sequencing", Zaramela et al., mSystems 2022

    biocore/pysyndna’s past year of commit activity
    Python 0 0 0 0 Updated Dec 12, 2025
  • unifrac-binaries Public
    biocore/unifrac-binaries’s past year of commit activity
    C++ 2 BSD-3-Clause 9 4 0 Updated Dec 5, 2025
  • gemelli Public

    Gemelli is a tool box for running Robust Aitchison PCA (RPCA), Joint Robust Aitchison PCA (Joint-RPCA), TEMPoral TEnsor Decomposition (TEMPTED), and Compositional Tensor Factorization (CTF) on sparse compositional omics datasets.

    biocore/gemelli’s past year of commit activity
    Python 85 BSD-3-Clause 19 35 3 Updated Nov 3, 2025
  • micov Public

    Aggregate genome coverage

    biocore/micov’s past year of commit activity
    Python 10 6 12 1 Updated Oct 12, 2025
  • unifrac Public
    biocore/unifrac’s past year of commit activity
    Python 41 BSD-3-Clause 17 10 0 Updated Oct 10, 2025
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