mergem is a python package and command-line tool for merging, comparing, and translating genome-scale metabolic models
☆14Aug 20, 2025Updated 8 months ago
Alternatives and similar repositories for mergem
Users that are interested in mergem are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- This repository contains all source code in the reconstructor python package, installation instructions, important file dependencies, and…☆24Feb 6, 2026Updated 2 months ago
- ☆24Oct 19, 2023Updated 2 years ago
- Chimera: An easy to use pipeline for Genome based Metabolic Network reconstruction, evaluation and visualization.☆18Oct 21, 2022Updated 3 years ago
- CBMPy is a Python based platform for constraint based modelling and analysis.☆20Apr 27, 2026Updated last week
- CobraMod is a Python 3 open-source package which enables modifying and extending genome-scale metabolic models with metabolic pathway inf…☆18Apr 28, 2026Updated last week
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- agent based modelling☆35Aug 28, 2024Updated last year
- Informed prediction and analysis of bacterial metabolic pathways and genome-scale networks☆212Mar 5, 2026Updated 2 months ago
- Python package for building and analyzing models using ModelSEED☆27Feb 11, 2026Updated 2 months ago
- An integrated visual environment for metabolic modeling methods such as FBA, FVA and Elementary Flux Modes, and advanced features such as…☆65Apr 2, 2026Updated last month
- Package that facilitates pulling database entries from KEGG via its REST API☆12Mar 20, 2026Updated last month
- ☆16Oct 15, 2025Updated 6 months ago
- Teaching materials for SymbNET course: from MAGs to GEMs☆14Jan 8, 2024Updated 2 years ago
- From annotated genomes to metabolic screening in large scale microbiotas☆71Apr 27, 2026Updated last week
- A tool to search for gadgets, operations, and ROP chains using a backtracking algorithm in a tree-like structure☆19Jun 13, 2023Updated 2 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Python interface for running COMETS simulations and analyzing the results☆16Feb 24, 2026Updated 2 months ago
- A simple python web app to visualise google location history☆16Jul 16, 2024Updated last year
- ReFramed: metabolic modeling package☆63Sep 16, 2025Updated 7 months ago
- ☆16Jan 12, 2026Updated 3 months ago
- A QIIME 2 plugin for interaction with the Greengenes2 database☆33Oct 1, 2024Updated last year
- An OWL vocabulary to allow the serialization and exchanging of OntoUML models in conformance with the OntoUML Metamodel.☆13Aug 22, 2023Updated 2 years ago
- Graph Learning with JAX☆14Jul 11, 2022Updated 3 years ago
- The funny insult device for everyday use.☆16Apr 13, 2026Updated 3 weeks ago
- Basic Docker Compose template application with Flask, Celery, Redis, MySQL, SocketIO, Nginx and Gunicorn.☆16Nov 26, 2023Updated 2 years ago
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- A python implementation of flux balance analysis to model microbial metabolism☆28Feb 25, 2023Updated 3 years ago
- paprica - PAthway PRediction by phylogenetIC plAcement☆32Apr 16, 2024Updated 2 years ago
- Fractional Brownian Motion package☆11Jun 24, 2022Updated 3 years ago
- refineGEMs is a python package inteded to help with the curation of genome-scale metabolic models (GEMS).☆18Mar 24, 2026Updated last month
- Repository for educational material related to the 2025 C-FORS Summer school in Oslo, Norway.☆18May 27, 2025Updated 11 months ago
- An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within micro…☆260Jul 27, 2024Updated last year
- SMETANA: a tool to analyse interactions in microbial communities☆70May 6, 2025Updated 11 months ago
- Growth Rate Index (GRiD) measures bacterial growth rate from reference genomes (including draft quality genomes) and metagenomic bins at …☆32May 22, 2020Updated 5 years ago
- ☆15Mar 18, 2026Updated last month
- Simple, predictable pricing with DigitalOcean hosting • AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- ☆16May 8, 2024Updated last year
- A smorgasbord of R functions for performing and teaching population genomic analyses☆19Jan 26, 2026Updated 3 months ago
- Changelog & feature requests for IONOS Deploy Now☆18Jul 12, 2023Updated 2 years ago
- COnstraint Based Reconstruction and EXascale Analysis (in Julia)☆18Sep 26, 2025Updated 7 months ago
- Rebuild of AskOmics☆14Updated this week
- USEARCH中文帮助文档(USEARCH Chinese manual)☆23Aug 1, 2024Updated last year
- A newly developed metabolic modeling pipeline, SuperCC, which could simulate the performances of different microbiomes.☆27Nov 21, 2025Updated 5 months ago