Workflow to download, process, and explore microbial RNA-seq data from NCBI SRA
☆19Feb 29, 2024Updated 2 years ago
Alternatives and similar repositories for modulome-workflow
Users that are interested in modulome-workflow are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Workflow to download, process, and explore microbial RNA-seq data from NCBI SRA☆30Nov 7, 2024Updated last year
- Python package for analyzing and visualizing iModulons☆15May 25, 2026Updated last month
- Enzyme-constrained genome-scale models in python☆38Oct 25, 2023Updated 2 years ago
- Transformer for protein function prediction (version 2)☆14Jun 5, 2026Updated last month
- Machine learning workflows for analyzing high-throughput protein data☆27Nov 22, 2016Updated 9 years ago
- AI Agents on 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.
- ☆11May 3, 2017Updated 9 years ago
- Enzyme models that take into account kinetics, allostery and thermodynamics☆29Sep 3, 2024Updated last year
- Variational Auto Encoders for learning binding signatures of transcription factors☆14Mar 14, 2024Updated 2 years ago
- GO2Sum is a deep learning based summarizer that generates human-readable summaries for GO term annotations made by protein function predi…☆16Mar 27, 2024Updated 2 years ago
- Code repository for machine learning and computational analysis of large-scale microbial genomics data (https://rdcu.be/9rHj)☆20May 12, 2025Updated last year
- teemi: A Python package for reproducible and FAIR microbial strain construction. Simulate the entire dbtl-cycle, generate genetic parts, …☆44Apr 27, 2026Updated 2 months ago
- Dynamic FBA for use with COBRApy metabolic models☆10Sep 26, 2023Updated 2 years ago
- A set of tools to analyse the output from TraDIS analyses☆24Jun 15, 2026Updated 2 weeks ago
- Repository for the TRANSIT and TPP tools developed by the Ioerger Lab☆24Dec 23, 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.
- Learning Ontologies Via Embeddings☆12Jul 6, 2023Updated 2 years ago
- A cookiecutter template that reflects my favored structure for setting up Snakemake-based analysis pipelines.☆16Jul 25, 2016Updated 9 years ago
- A simulation engine for compartmental models☆15Jun 4, 2026Updated last month
- A snakemake workflow for benchmarking variant calling approaches with Genome in a Bottle (GIAB), CHM (syndip) or other custom datasets☆13Jun 26, 2026Updated last week
- A Python 3 implementation of Thermodynamics-based Flux Analysis☆46Jul 9, 2025Updated 11 months ago
- R CRAN package `diptest` : Hartigan's diptest for unimodality (including p-values)☆11Aug 19, 2025Updated 10 months ago
- FLYCOP (FLexible sYnthetic Consortium OPtimization)☆12Sep 24, 2018Updated 7 years ago
- ☆10Dec 15, 2023Updated 2 years ago
- ☆10Dec 12, 2017Updated 8 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- the toolbox for Microbial and personalized GEM, REactiobiome and community NEtwork modelling☆11Feb 3, 2024Updated 2 years ago
- Generator and regressor neural networks for antimicrobial peptides☆25Jan 30, 2024Updated 2 years ago
- A flux balance analysis machine learning classifier for microbial GWAS☆14Jan 14, 2020Updated 6 years ago
- Uncover organisms' metabolic blueprints☆17Jun 18, 2024Updated 2 years ago
- A nextflow pipeline for performing bacterial RNA-Seq data analysis.☆13Apr 26, 2026Updated 2 months ago
- QuickProt: A Fast and Accurate Homology-Based Protein Annotation Tool for Non-Model Organisms to Advance Comparative Genomics☆23May 16, 2026Updated last month
- A collection of tools to work with Illumina's basespace☆13Apr 10, 2019Updated 7 years ago
- ☆12Jun 23, 2026Updated last week
- ☆10Oct 21, 2023Updated 2 years 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.
- Muller diagrams excel at visualizing evolutionary dynamics of a population over time. A common use case, and the intended use case durin…☆15Oct 13, 2020Updated 5 years ago
- Microsoft Azure HPC & Big Compute☆15Aug 18, 2019Updated 6 years ago
- COBRAdb loads genome-scale metabolic models and genome annotations into a relational database. It already powers BiGG Models, and it is a…☆20Oct 29, 2019Updated 6 years ago
- PanGenomePipeline☆16Apr 10, 2024Updated 2 years ago
- ☆16Sep 8, 2021Updated 4 years ago
- Convert genome annotation GTF file into plain CSV format☆17Oct 3, 2018Updated 7 years ago
- ☆18May 5, 2020Updated 6 years ago