Informed prediction and analysis of bacterial metabolic pathways and genome-scale networks
☆215Jun 8, 2026Updated this week
Alternatives and similar repositories for gapseq
Users that are interested in gapseq are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- CarveMe: genome-scale metabolic model reconstruction☆207Sep 12, 2025Updated 9 months ago
- A scalable high-throughput metabolic and biogeochemical functional trait profiler☆227Mar 24, 2026Updated 2 months ago
- An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within micro…☆264May 13, 2026Updated last month
- From annotated genomes to metabolic screening in large scale microbiotas☆74May 26, 2026Updated 2 weeks ago
- agent based modelling☆37Aug 28, 2024Updated last year
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes☆334Jun 3, 2026Updated last week
- Read alignment statistics for metagenomics☆399Apr 8, 2026Updated 2 months ago
- Pipeline for metabolic annotation of microbial genomes☆150Mar 20, 2025Updated last year
- SMETANA: a tool to analyse interactions in microbial communities☆70May 6, 2025Updated last year
- mergem is a python package and command-line tool for merging, comparing, and translating genome-scale metabolic models☆14Aug 20, 2025Updated 9 months ago
- A hybrid assembly and MAG recovery pipeline (and more!)☆107Jun 5, 2026Updated last week
- Python package to study microbial communities using metabolic modeling.☆129Updated this week
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆57May 24, 2026Updated 2 weeks ago
- Linking MAGs with 16S rRNA marker genes☆27Feb 8, 2025Updated last year
- 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.
- This tool estimates the completeness of KEGG pathway modules from the presence or absence of KEGG orthologues (KOs)☆38Apr 7, 2026Updated 2 months ago
- 🦠🧬🧑💻📇 Microbial genomes-to-report pipeline☆74Mar 14, 2026Updated 2 months ago
- GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.☆606May 20, 2026Updated 3 weeks ago
- A package to annotate protein sequences☆63Feb 23, 2025Updated last year
- antiSMASH☆256May 27, 2026Updated 2 weeks ago
- geNomad: Identification of mobile genetic elements☆316Mar 29, 2026Updated 2 months ago
- Toolbox for comparative genomics of MAGs☆91Apr 28, 2026Updated last month
- Targeted Detection and Reconstruction of Plasmids☆22May 7, 2024Updated 2 years ago
- From genomes to phenotypes: Traitar3, the microbial trait analyzer (for Python3)☆22Jul 8, 2024Updated last year
- 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.
- ☆17Jun 5, 2026Updated last week
- Assessing the quality of metagenome-derived genome bins using machine learning☆267Mar 20, 2025Updated last year
- COnstraint-based Reconstruction and Analysis (COBRA) of metabolic networks in R☆17May 6, 2026Updated last month
- Precise phylogenetic analysis of microbial isolates and genomes from metagenomes☆167Feb 13, 2026Updated 4 months ago
- Rapid comparison and dereplication of genomes☆346Nov 10, 2025Updated 7 months ago
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆253May 13, 2026Updated last month
- 🚦🧬 Binning Metagenomic Contigs via Composition, Coverage and Assembly Graphs☆69Sep 26, 2024Updated last year
- MAG Circularization Method☆33Nov 4, 2025Updated 7 months ago
- ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.☆307Feb 3, 2026Updated 4 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.
- An integrated visual environment for metabolic modeling methods such as FBA, FVA and Elementary Flux Modes, and advanced features such as…☆67May 28, 2026Updated 2 weeks ago
- SemiBin: metagenomics binning with self-supervised deep learning☆164Jun 7, 2026Updated last week
- Protologgger is a tool for the description of novel taxa by providing taxonomic, functional and ecological insights☆18Nov 24, 2025Updated 6 months ago
- Teaching materials for SymbNET course: from MAGs to GEMs☆15Jan 8, 2024Updated 2 years ago
- KEGG Module Evaluation Tool☆33Mar 5, 2026Updated 3 months ago
- Bioinformatics program inStrain☆188Mar 12, 2026Updated 3 months ago
- A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences☆67Apr 30, 2026Updated last month