Resendis Antonio Lab

All

25 repositories

sc-PHENIX
Public
Jupyter Notebook
•
MIT License
•1•0•0•0•Updated Oct 30, 2024Oct 30, 2024
M1-M2-Macrophage-Polarization
Public
R
•1•0•0•0•Updated Oct 3, 2024Oct 3, 2024
resendislab.github.io
Public
The (rendered) website of the Resendis lab. Do not send PRs here! Use https://github.com/resendislab/website instead!
bioinformatics genomics cancer systems-biology computational-biology systemsbiology computational-science genomic-sciences sciences
HTML
•0•0•0•0•Updated Sep 10, 2024Sep 10, 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 Artificial Intelligence"
Jupyter Notebook
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MIT License
•1•0•0•0•Updated Aug 12, 2024Aug 12, 2024
Modeling_Heterogeneity_Cancer_Metabolism_MICOM
Public
Jupyter Notebook
•0•0•0•0•Updated Aug 9, 2024Aug 9, 2024
corda
Public
An implementation of genome-scale model reconstruction using Cost Optimization Reaction Dependency Assessment by Schultz et. al
flux bioinformatics genome modeling systems-biology biochemistry metabolism reconstruction cobra cobrapy
Python
•
MIT License
•8•23•3•3•Updated Jul 15, 2024Jul 15, 2024
website
Public
Our group website files for Hugo. Send PRs for updates here.
HTML
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Apache License 2.0
•0•1•0•0•Updated Mar 1, 2024Mar 1, 2024
mb-PHENIX
Public
Jupyter Notebook
•
MIT License
•0•1•0•0•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 keystone taxa in Mexican cohort study: A multidimensional perspective on microbial ecology
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
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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
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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
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Apache License 2.0
•18•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
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Apache License 2.0
•3•2•0•0•Updated Oct 2, 2018Oct 2, 2018
dycone
Public
Analyze enzyme regulation with metabolome data.
R
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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.
bioinformatics pipeline docker-image microbiome
R
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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.
docker docker-image cobrapy metabolic-models me-model
Jupyter Notebook
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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.
docker demo material docker-commands
Python
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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
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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
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MIT License
•0•0•0•0•Updated Jun 13, 2016Jun 13, 2016