Skip to content

@borenstein-lab borenstein-lab

Change the repository type filter

All

    Repositories list

    24 repositories

    • mimosa2

      Public
      R
      •
      GNU General Public License v3.0
      •6•11•4•0•Updated Dec 16, 2024Dec 16, 2024

    • microbiome-metabolome-curated-data

      Public
      HTML
      •
      MIT License
      •25•59•1•0•Updated Oct 16, 2024Oct 16, 2024

    • multi_view_integration_analysis

      Public
      R
      •0•11•0•0•Updated Jun 6, 2024Jun 6, 2024

    • RDR

      Public
      R
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated May 5, 2024May 5, 2024

    • longitudinal_interpolation

      Public
      Jupyter Notebook
      •1•0•0•0•Updated Apr 18, 2024Apr 18, 2024

    • IIRN_multi_omic

      Public
      Multiomic analysis for the paper titled "Integrative analysis of untargeted serum and fecal metabolome and gut microbiome reveals a role in Crohn Disease and with signals that precede a disease flare"
      R
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Jan 17, 2024Jan 17, 2024

    • vaginal_microbiome_manifold

      Public
      Manifold detection
      Jupyter Notebook
      •0•0•0•0•Updated Dec 28, 2023Dec 28, 2023

    • MIMOSA2shiny

      Public
      R
      •
      GNU General Public License v3.0
      •0•2•3•0•Updated Dec 19, 2023Dec 19, 2023

    • SOURCE_multiomics

      Public
      R
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Jun 15, 2023Jun 15, 2023

    • drug_microbiome

      Public
      Data and code for paper "A data-driven approach for predicting the impact of drugs on the human microbiome"
      R
      •
      GNU General Public License v3.0
      •0•8•0•0•Updated Apr 20, 2023Apr 20, 2023

    • IFDP

      Public
      Python
      •1•1•0•0•Updated Dec 13, 2022Dec 13, 2022

    • microbiome_temporal_alignment

      Public
      Jupyter Notebook
      •0•1•0•0•Updated May 13, 2022May 13, 2022

    • burrito

      Public
      A visualization tool for exploratory data analysis of metagenomic data
      JavaScript
      •
      GNU General Public License v3.0
      •9•36•20•0•Updated Mar 22, 2022Mar 22, 2022

    • robustness

      Public
      R
      •
      GNU General Public License v3.0
      •2•0•0•0•Updated Feb 11, 2022Feb 11, 2022

    • robustness_of_gut_microbiome-metabolite_associations

      Public
      R
      •2•2•0•0•Updated Dec 14, 2021Dec 14, 2021

    • MetaLAFFA

      Public
      A bioinformatics pipeline for annotating functional capacities in shotgun metagenomic data with native compute cluster integration
      Python
      •
      GNU General Public License v3.0
      •3•7•6•0•Updated Nov 16, 2021Nov 16, 2021

    • fishtaco

      Public
      FishTaco (Functional Shifts Taxonomic Contributors) is a metagenomic computational framework that aims to identify the driver taxa of microbiome functional shifts
      Python
      •
      Other
      •4•23•10•0•Updated Jul 3, 2021Jul 3, 2021

    • fishtaco-plot

      Public
      R
      •0•3•0•0•Updated Jul 3, 2021Jul 3, 2021

    • MIMOSA

      Public
      Model-based Integration of Metabolite Observations and Species Abundances
      R
      •8•23•0•0•Updated Feb 21, 2020Feb 21, 2020

    • T6SS

      Public
      Python
      •0•0•0•0•Updated Jan 14, 2020Jan 14, 2020

    • MUSiCC

      Public
      MUSiCC: A marker genes based framework for metagenomic normalization and accurate profiling of gene abundances in the microbiome
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •5•16•6•0•Updated Nov 7, 2019Nov 7, 2019

    • microbiome-metabolome-evaluation

      Public
      R
      •0•3•0•0•Updated Sep 3, 2019Sep 3, 2019

    • CoMiDA

      Public
      The code and distributable for designing minimal microbial communities with specified metabolic functions.
      C++
      •
      Other
      •3•11•0•0•Updated Aug 9, 2017Aug 9, 2017

    • empanada

      Public
      empanada is a tool for evidence-based assignment of genes to pathways in metagenomic data
      Python
      •
      Other
      •2•3•1•0•Updated Feb 13, 2016Feb 13, 2016