A newly developed metabolic modeling pipeline, SuperCC, which could simulate the performances of different microbiomes.
☆26Nov 21, 2025Updated 3 months ago
Alternatives and similar repositories for superCC
Users that are interested in superCC are comparing it to the libraries listed below
Sorting:
- mergem is a python package and command-line tool for merging, comparing, and translating genome-scale metabolic models☆13Aug 20, 2025Updated 6 months ago
- ☆11Aug 12, 2022Updated 3 years ago
- Teaching materials for SymbNET course: from MAGs to GEMs☆14Jan 8, 2024Updated 2 years ago
- ☆14Jan 12, 2026Updated last month
- ☆16Dec 26, 2022Updated 3 years ago
- Chimera: An easy to use pipeline for Genome based Metabolic Network reconstruction, evaluation and visualization.☆18Oct 21, 2022Updated 3 years ago
- High throughput sequencing -- Amplicon sequencing, mainly include 16S, 18S and ITS for microbiome analysis☆15Jan 16, 2023Updated 3 years ago
- Computer code for the manuscript "Climate Warming Enhances Microbial Network Complexity and Stability"☆51Dec 9, 2021Updated 4 years ago
- Collection of commonly used RDP Tools for easy building☆51Jun 8, 2023Updated 2 years ago
- Python package for building and analyzing models using ModelSEED☆24Feb 11, 2026Updated 3 weeks ago
- This repository contains an excel spreadsheet, and a Jupyter Notebook written in Python, which models the behaviour of predator-prey syst…☆23Aug 6, 2017Updated 8 years ago
- ☆24Oct 19, 2023Updated 2 years ago
- Predict oxygen, temperature, salinity, and pH preferences of bacteria and archaea from a genome☆67Mar 28, 2025Updated 11 months ago
- A Reference Pathways Mapper for turning metagenomic functional profiles into pathway/module profiles.☆27Nov 21, 2018Updated 7 years ago
- Python package to study microbial communities using metabolic modeling.☆120Updated this week
- A list of cool software for genetic analysis and the like☆12Sep 21, 2018Updated 7 years ago
- Fast, accurate taxonomic assignments for the human vaginal microbiota☆11Feb 11, 2026Updated 3 weeks ago
- agent based modelling☆35Aug 28, 2024Updated last year
- An R package to call oomycete effectors☆11Aug 31, 2023Updated 2 years ago
- Predicting Activated Sludge Microbial Communities based on time series of continuous sludge samples by using graph neural networks☆17Feb 23, 2026Updated last week
- ☆14Feb 20, 2026Updated last week
- ☆13Jan 26, 2025Updated last year
- ☆89Sep 3, 2024Updated last year
- SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same specie…☆39Sep 17, 2025Updated 5 months ago
- A highly scalable, user-interactive tool for the large scale analysis of Biosynthetic Gene Clusters data☆96Aug 11, 2025Updated 6 months ago
- ANnotation-based ANalysis of Specific Interactions☆10Oct 10, 2025Updated 4 months ago
- KiwiSDR: BeagleBone web-accessible shortwave receiver and software-defined GPS☆10Mar 6, 2023Updated 3 years ago
- An R interface to the omixer-rpm for turning metagenomic functional profiles into pathway/module profiles☆12Dec 16, 2022Updated 3 years ago
- COnstraint-based Reconstruction and Analysis (COBRA) of metabolic networks in R☆15Updated this week
- ☆10Jul 13, 2022Updated 3 years ago
- MICROPHERRET: MICRObial PHEnotypic tRait ClassifieR using machine lEarning Techniques☆12Dec 16, 2025Updated 2 months ago
- Compare microbial co-occurrence networks based on the trans_network class of microeco package☆12Feb 15, 2026Updated 2 weeks ago
- a greta extension for generalised additive modelling using mgcv☆11Jan 14, 2025Updated last year
- Higher-Order Co-occurrence☆12Nov 9, 2021Updated 4 years ago
- Identification of viral RdRPs in single-cell RNA sequencing data☆13Jul 23, 2025Updated 7 months ago
- This is a new deep-learning pipeline for AMP predictions☆16Mar 5, 2025Updated last year
- USDA Nutrition codes Tree☆11Feb 13, 2020Updated 6 years ago
- Bioactive Molecular Networks Project☆14Nov 17, 2020Updated 5 years ago
- rcookbook☆10Oct 14, 2016Updated 9 years ago