Informed prediction and analysis of bacterial metabolic pathways and genome-scale networks
☆226Aug 26, 2026Updated 3 weeks ago
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☆222Sep 12, 2025Updated last year
- A scalable high-throughput metabolic and biogeochemical functional trait profiler☆234Mar 24, 2026Updated 5 months ago
- From annotated genomes to metabolic screening in large scale microbiotas☆77Jul 27, 2026Updated last month
- An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within micro…☆274May 13, 2026Updated 4 months ago
- Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes☆342Sep 16, 2026Updated last week
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- agent based modelling☆39Aug 28, 2024Updated 2 years ago
- COnstraint-based Reconstruction and Analysis (COBRA) of metabolic networks in R☆18May 6, 2026Updated 4 months ago
- Read alignment statistics for metagenomics☆406Jul 10, 2026Updated 2 months ago
- Pipeline for metabolic annotation of microbial genomes☆155Mar 20, 2025Updated last year
- SMETANA: a tool to analyse interactions in microbial communities☆74May 6, 2025Updated last year
- Python package to study microbial communities using metabolic modeling.☆136Updated this week
- A hybrid assembly and MAG recovery pipeline (and more!)☆119Sep 9, 2026Updated 2 weeks ago
- mergem is a python package and command-line tool for merging, comparing, and translating genome-scale metabolic models☆15Aug 20, 2025Updated last year
- Linking MAGs with 16S rRNA marker genes☆27Feb 8, 2025Updated last year
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Database and pipeline for protein structure-guided annotations of ecologically relevant functions at the metagenome scale.☆34Nov 2, 2025Updated 10 months ago
- ⚡🦠🧬📇 Rapid microbial genomes-to-report pipeline☆76Updated this week
- GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.☆622May 20, 2026Updated 4 months ago
- A package to annotate protein sequences☆63Feb 23, 2025Updated last year
- antiSMASH☆266Aug 24, 2026Updated 3 weeks ago
- Toolbox for comparative genomics of MAGs☆93Jul 30, 2026Updated last month
- Targeted Detection and Reconstruction of Plasmids☆22May 7, 2024Updated 2 years ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆64Sep 1, 2026Updated 3 weeks ago
- From genomes to phenotypes: Traitar3, the microbial trait analyzer (for Python3)☆21Jul 8, 2024Updated 2 years ago
- 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.
- ☆18Jun 5, 2026Updated 3 months ago
- geNomad: Identification of mobile genetic elements☆334Mar 29, 2026Updated 5 months ago
- Precise phylogenetic analysis of microbial isolates and genomes from metagenomes☆171Jun 10, 2026Updated 3 months ago
- Assessing the quality of metagenome-derived genome bins using machine learning☆279Mar 20, 2025Updated last year
- Rapid comparison and dereplication of genomes☆357Sep 4, 2026Updated 2 weeks ago
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆264May 13, 2026Updated 4 months ago
- A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences☆67Sep 1, 2026Updated 3 weeks ago
- An integrated visual environment for metabolic modeling methods such as FBA, FVA and Elementary Flux Modes, and advanced features such as…☆70Updated this week
- MAG Circularization Method☆33Nov 4, 2025Updated 10 months 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.
- 🚦🧬 Binning Metagenomic Contigs via Composition, Coverage and Assembly Graphs☆69Aug 28, 2026Updated 3 weeks ago
- KEGG Module Evaluation Tool☆33Mar 5, 2026Updated 6 months ago
- SemiBin: metagenomics binning with self-supervised deep learning☆175Updated this week
- Similarity networks of biosynthetic gene clusters☆179Apr 1, 2026Updated 5 months ago
- Protologgger is a tool for the description of novel taxa by providing taxonomic, functional and ecological insights☆17Nov 24, 2025Updated 9 months ago
- Bioinformatics program inStrain☆193Mar 12, 2026Updated 6 months ago
- Teaching materials for SymbNET course: from MAGs to GEMs☆15Jan 8, 2024Updated 2 years ago