This repository contains all source code in the reconstructor python package, installation instructions, important file dependencies, and benchmarking scores for reconstructor models. Reconstructor is a COBRApy compatible, automated GENRE building tool from gene fastas based on KEGG annotations.
☆24Feb 6, 2026Updated 3 months ago
Alternatives and similar repositories for reconstructor
Users that are interested in reconstructor are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- mergem is a python package and command-line tool for merging, comparing, and translating genome-scale metabolic models☆14Aug 20, 2025Updated 9 months ago
- refineGEMs is a python package inteded to help with the curation of genome-scale metabolic models (GEMS).☆19Mar 24, 2026Updated 2 months ago
- Genome scale metabolic models in SBML format☆11Nov 16, 2021Updated 4 years ago
- ☆24Oct 19, 2023Updated 2 years ago
- CobraMod is a Python 3 open-source package which enables modifying and extending genome-scale metabolic models with metabolic pathway inf…☆18May 11, 2026Updated 2 weeks 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.
- This is a repository for CAMPER.☆17Mar 18, 2024Updated 2 years ago
- Classify metagenomic contigs as eukaryotic or prokaryotic☆45Feb 17, 2023Updated 3 years ago
- Grabbing genome accessions & download info based on taxonomy, using the NCBI REST API, w00t☆12Feb 23, 2025Updated last year
- Informed prediction and analysis of bacterial metabolic pathways and genome-scale networks☆213May 19, 2026Updated last week
- From annotated genomes to metabolic screening in large scale microbiotas☆73Apr 27, 2026Updated 3 weeks ago
- ☆22Mar 19, 2025Updated last year
- memote – the genome-scale metabolic model test suite☆146Aug 14, 2025Updated 9 months ago
- A smorgasbord of R functions for performing and teaching population genomic analyses☆19Jan 26, 2026Updated 4 months ago
- Database and pipeline for protein structure-guided annotations of ecologically relevant functions at the metagenome scale.☆27Nov 2, 2025Updated 6 months 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.
- Enumerating biosynthetic pathways in metabolic networks☆13Feb 5, 2025Updated last year
- Enzyme-constrained genome-scale models in python☆38Oct 25, 2023Updated 2 years ago
- The aim of this repository is to maintain, refine, and expand the AGORA collection of genome-scale metabolic reconstructions for human gu…☆25Dec 10, 2020Updated 5 years ago
- D3.js based visualizations of cobrapy metabolic models☆50Mar 10, 2020Updated 6 years ago
- CBMPy is a Python based platform for constraint based modelling and analysis.☆20Updated this week
- Dynamic FBA for use with COBRApy metabolic models☆10Sep 26, 2023Updated 2 years ago
- Minimal Microbial Consortia creation tools☆13Jan 28, 2022Updated 4 years ago
- Python package for building and analyzing models using ModelSEED☆28Feb 11, 2026Updated 3 months ago
- Package that facilitates pulling database entries from KEGG via its REST API☆12Mar 20, 2026Updated 2 months ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- teemi: A Python package for reproducible and FAIR microbial strain construction. Simulate the entire dbtl-cycle, generate genetic parts, …☆44Apr 27, 2026Updated 3 weeks ago
- ☆77Mar 10, 2024Updated 2 years ago
- CarveMe: genome-scale metabolic model reconstruction☆207Sep 12, 2025Updated 8 months ago
- COBRApy is a package for constraint-based modeling of metabolic networks.☆562Apr 8, 2026Updated last month
- The RAVEN Toolbox for genome scale model reconstruction, curation and analysis.☆127May 18, 2026Updated last week
- Inference of putative transmission phylogenetic clusters☆12Oct 13, 2020Updated 5 years ago
- Python interface for running COMETS simulations and analyzing the results☆16May 19, 2026Updated last week
- A simple python web app to visualise google location history☆16Jul 16, 2024Updated last year
- 🚦🧬 Binning Metagenomic Contigs via Composition, Coverage and Assembly Graphs☆69Sep 26, 2024Updated last year
- 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.
- SINA - Reference based multiple sequence alignment☆41Dec 13, 2020Updated 5 years ago
- An integrated visual environment for metabolic modeling methods such as FBA, FVA and Elementary Flux Modes, and advanced features such as…☆66Apr 2, 2026Updated last month
- WITCH is a multiple sequence alignment method that uses multiple weighted HMMs to align unaligned sequences and find consensuses.☆13Nov 18, 2025Updated 6 months ago
- Pathway-Guided Pruning Reconstruction of Genome-Scale Metabolic Models☆12Nov 28, 2023Updated 2 years ago
- Materials for my scikit-learn tutorial☆12May 7, 2026Updated 2 weeks ago
- StrainDesign is a python package for the computational design of metabolic networks and based on COBRApy☆50Mar 23, 2026Updated 2 months ago
- The funny insult device for everyday use.☆16May 10, 2026Updated 2 weeks ago