A metadata schema for the Minimum Information about Intermicrobial Interaction Data (MIIID) using LinkML
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Aug 14, 2023 - Python
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microbial-interactions
Here are 7 public repositories matching this topic...
Deciphering microbial interactions with functional redundancy in human microbial community with partial information decomposition.
microbial-communities metagenomic-analysis gut-microbiome partial-information-decomposition microbial-interactions human-gut functional-redundancy
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Jan 18, 2025 - Python
Microbial Community Mechanisms Knowledge Base - LinkML-based modeling of microbial communities with evidence-based ecological interactions
microbial-communities microbiology microbiome microbiome-analysis microbial-ecology microbiome-data microbes microbial-interactions microbial-community-assembly microbial-community-dynamics
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Apr 16, 2026 - Python
Bioinformatic workflow, statistical analysis and figure preparation for the "Defining the cultured and uncultured bacterial fractions in Cannabis seeds" MS
bacteria microbial-interactions co-occurence-network plant-microbiome seed-endophytes culturing microbial-dark-matter microbiome-breeding
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Jun 17, 2025 - R
Data and code used to understand the mechanisms enabling coexistence of four bacteria across diverse environments
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Apr 23, 2026 - Jupyter Notebook
Interactive and evolving catalogue of microbial interactions based on the framework of Pacheco and Segrè (2019)
scientific-visualization catalogue shiny-apps community-project microbial-ecology microbial-interactions
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Dec 10, 2021 - R
Official website of the Burstein Lab at Tel Aviv University - computational microbiology using NLP, machine learning, and large language models to study CRISPR-Cas systems, antimicrobial resistance, horizontal gene transfer, and microbial interactions
nlp machine-learning natural-language-processing bioinformatics microbial-genomics crispr microbiology horizontal-gene-transfer antibiotic-resistance plasmids phages microbial-interactions large-language-models computational-microbiology
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Apr 18, 2026 - CSS
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