Genome scale metabolic models in SBML format
☆10Nov 16, 2021Updated 4 years ago
Alternatives and similar repositories for genome-scale-models
Users that are interested in genome-scale-models are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ETFL: A formulation for flux balance models accounting for expression, thermodynamics, and resource allocation constraints☆16Jul 8, 2025Updated 8 months ago
- This repository contains all source code in the reconstructor python package, installation instructions, important file dependencies, and…☆24Feb 6, 2026Updated last month
- SODECL is a library of ordinary differential equation (ODE) and stochastic differential equation (SDE) solvers in OpenCL.☆11Jul 4, 2020Updated 5 years ago
- This repository contains the code developed for the NanOlympicsMod project.☆12Jan 29, 2024Updated 2 years ago
- Package to link to CGAL (Computational Geometry Algorithms Library) header files. Downloads CGAL version 6.0.1 on install.☆13Oct 10, 2025Updated 5 months ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click and start building anything your business needs.
- A Nextflow workflow for HLA typing using HLA-HD☆14Jul 3, 2024Updated last year
- Particle Swarm Optimization algorithm in Python☆13Apr 23, 2024Updated last year
- Repository containing scripts and analysis for ML-Guided Acyl-ACP Reductase Engineering paper☆11Nov 21, 2023Updated 2 years ago
- Sample R package with C/C++ code to trigger Address and Undefined Behaviour Sanitizers☆13Feb 12, 2026Updated last month
- Detecting Sequence Signals in Targeting Peptides Using Deep Learning☆14Sep 5, 2019Updated 6 years ago
- Parameter estimation and model calibration using Genetic Algorithm optimization in Python.☆12Aug 16, 2024Updated last year
- A cookiecutter template that reflects my favored structure for setting up Snakemake-based analysis pipelines.☆16Jul 25, 2016Updated 9 years ago
- A snakemake workflow for benchmarking variant calling approaches with Genome in a Bottle (GIAB), CHM (syndip) or other custom datasets☆13Mar 19, 2026Updated last week
- A software toolkit for the interconversion of standard data models for phenotypic data☆15Mar 13, 2026Updated last week
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- Pipeline for automatic processing and quality control of mass spectrometry data☆13Jan 30, 2025Updated last year
- Spatiotemporal Clustering and Inference of Omics Networks (SC-ION)☆12Oct 24, 2024Updated last year
- the toolbox for Microbial and personalized GEM, REactiobiome and community NEtwork modelling☆11Feb 3, 2024Updated 2 years ago
- StochKit is an extensible tool for stochastic simulation tool with stochastic and multiscale algorithms.☆17Jun 9, 2020Updated 5 years ago
- WordPress plugin that makes building analytics friendly links quick and easy.☆11Mar 5, 2026Updated 3 weeks ago
- ☆25Jun 3, 2014Updated 11 years ago
- Evodictor is a software package for learning patterns and predicting the future of evolution by gain/losses of given traits☆14Sep 27, 2024Updated last year
- A collection of tools to work with Illumina's basespace☆13Apr 10, 2019Updated 6 years ago
- Software (with Kivy GUI) for semi-automated segmentation and analysis of birdsongs or other acoustic signals.☆16Jan 22, 2020Updated 6 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- ☆10Oct 21, 2023Updated 2 years ago
- A script to run HLA typing tools from next generation sequencing data☆12Jan 4, 2023Updated 3 years ago
- Muller diagrams excel at visualizing evolutionary dynamics of a population over time. A common use case, and the intended use case durin…☆13Oct 13, 2020Updated 5 years ago
- Microsoft Azure HPC & Big Compute☆15Aug 18, 2019Updated 6 years ago
- ☆16Sep 8, 2021Updated 4 years ago
- Benchmarking and metadata tracking for Python. Extensible, with distributed/cluster support.☆20Mar 19, 2026Updated last week
- User-submitted RNA-seq data analysis tools for BioJupies.☆20Jul 16, 2025Updated 8 months ago
- Python package for creating, calibrating and simulating RBA models☆13Jun 5, 2023Updated 2 years ago
- Neural Bacteriocin Identifier - a recurrent neural network based software to predict bacteriocins from protein sequences.☆18Mar 25, 2023Updated 3 years ago
- DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- A Mendelian approach to variant effect prediction built in keras☆20Nov 3, 2025Updated 4 months ago
- ☆20Mar 31, 2021Updated 4 years ago
- Tools for Batch Effects Diagnostics and Correction☆17Apr 25, 2025Updated 11 months ago
- BiGMeC - Biosynthetic Gene cluster Metabolic pathway Constructor☆16May 14, 2023Updated 2 years ago
- Convert .gbk or .embl to .gff (and optionally .fa) (required for QUAST)☆17Jun 19, 2014Updated 11 years ago
- TBiNet: A deep neural network for predicting transcription factor binding sites using attention mechanism☆25Jan 14, 2021Updated 5 years ago
- Workflow to download, process, and explore microbial RNA-seq data from NCBI SRA☆17Feb 29, 2024Updated 2 years ago