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@resendislab Resendis Antonio Lab

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    25 repositories

    • resendislab.github.io

      Public
      The (rendered) website of the Resendis lab. Do not send PRs here! Use https://github.com/resendislab/website instead!
      bioinformaticsgenomicscancersystems-biologycomputational-biologysystemsbiologycomputational-sciencegenomic-sciencessciences
      HTML
      •
      Apache License 2.0
      •0•0•0•0•Updated Feb 4, 2026Feb 4, 2026

    • website

      Public
      Our group website files for Hugo. Send PRs for updates here.
      HTML
      •
      Apache License 2.0
      •0•1•0•0•Updated Feb 3, 2026Feb 3, 2026

    • Modeling_Heterogeneity_Cancer_Metabolism_MICOM

      Public
      Jupyter Notebook
      •0•1•0•0•Updated Apr 24, 2025Apr 24, 2025

    • sc-PHENIX

      Public
      Jupyter Notebook
      •
      MIT License
      •1•1•0•0•Updated Oct 30, 2024Oct 30, 2024

    • M1-M2-Macrophage-Polarization

      Public
      R
      •1•0•0•0•Updated Oct 3, 2024Oct 3, 2024

    • POST_COVID_Metabolome_MachineLearning

      Public
      Notebooks to reproduce the results of our work "Exploring Metabolic Anomalies in COVID-19 and Post-COVID-19: A Machine Learning Approach with Explainable Artifi…
      Jupyter Notebook
      •
      MIT License
      •1•0•0•0•Updated Aug 12, 2024Aug 12, 2024

    • corda

      Public
      An implementation of genome-scale model reconstruction using Cost Optimization Reaction Dependency Assessment by Schultz et. al
      fluxbioinformaticsgenomemodelingsystems-biologybiochemistrymetabolismreconstructioncobracobrapy
      Python
      •
      MIT License
      •8•25•3•3•Updated Jul 15, 2024Jul 15, 2024

    • mb-PHENIX

      Public
      Jupyter Notebook
      •
      MIT License
      •1•2•0•1•Updated Oct 5, 2023Oct 5, 2023

    • MEXT2D_Networks

      Public
      This repository contains all the code to implement all examples showed in our paper: The gut microbiota and the progression of preT2D to T2D are linked to keys…
      HTML
      •1•3•0•0•Updated Mar 16, 2023Mar 16, 2023

    • DifEquations-macrophage

      Public
      Jupyter Notebook
      •
      MIT License
      •1•0•0•0•Updated Jan 10, 2023Jan 10, 2023

    • Microbiome_two_treatments_Metformine-Linagliptine

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Sep 27, 2022Sep 27, 2022

    • Covid-19_scRNAseq

      Public
      R
      •0•0•0•0•Updated Mar 31, 2022Mar 31, 2022

    • mext2d

      Public
      Analysis scripts and materials for the MEXT2D project.
      HTML
      •
      Apache License 2.0
      •2•1•0•0•Updated Mar 20, 2021Mar 20, 2021

    • Targeting-glycolysis-metabolism-DataModels

      Public
      MIT License
      •1•0•0•0•Updated Nov 12, 2020Nov 12, 2020

    • scPipeline

      Public template
      R
      •0•1•10•0•Updated Oct 9, 2020Oct 9, 2020

    • mbtools

      Public
      R package for microbiome analysis. Provides helper functions for common workflows ranging from preprocessing to visualization.
      R
      •
      Apache License 2.0
      •9•1•0•0•Updated May 28, 2019May 28, 2019

    • micom

      Public
      Python package to study microbial communities using metabolic modeling.
      Python
      •
      Apache License 2.0
      •22•2•0•0•Updated Apr 12, 2019Apr 12, 2019

    • scFBA

      Public
      MATLAB
      •5•0•0•0•Updated Nov 4, 2018Nov 4, 2018

    • micom_study

      Public
      Additional materials for the micom manuscript.
      Python
      •
      Apache License 2.0
      •3•2•0•0•Updated Oct 2, 2018Oct 2, 2018

    • dycone

      Public
      Analyze enzyme regulation with metabolome data.
      R
      •
      MIT License
      •1•0•0•0•Updated Sep 7, 2018Sep 7, 2018

    • microbiome

      Public archive
      The standardized analysis pipeline used for analyzing 16S and metagenome data.
      bioinformaticspipelinedocker-imagemicrobiome
      R
      •
      Apache License 2.0
      •2•5•0•0•Updated Jun 14, 2018Jun 14, 2018

    • cobrame-docker

      Public
      Docker image for a full ME model stack.
      dockerdocker-imagecobrapymetabolic-modelsme-model
      Jupyter Notebook
      •
      Apache License 2.0
      •0•0•0•0•Updated Jun 8, 2017Jun 8, 2017

    • docker_mini_training

      Public
      Material for the Docker mini training at INMEGEN.
      dockerdemomaterialdocker-commands
      Python
      •
      MIT License
      •1•1•0•0•Updated May 26, 2017May 26, 2017

    • proliferation

      Public
      Project to study proliferation and metabolic liabilities across several thousand cancer samples.
      R
      •
      MIT License
      •3•0•0•0•Updated Apr 24, 2017Apr 24, 2017

    • rater

      Public
      A flask app to rate and review participants of a conference.
      Python
      •
      MIT License
      •0•0•0•0•Updated Jun 13, 2016Jun 13, 2016