A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs
β35Dec 4, 2025Updated 8 months ago
Alternatives and similar repositories for ribap
Users that are interested in ribap are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- π¦ π§¬π§βπ»π Microbial genomes-to-report pipelineβ75Mar 14, 2026Updated 5 months ago
- screening metagenomes for arbitrary lineages, using gene-centric assembly methods and phylogeneticsβ10Oct 29, 2020Updated 5 years ago
- scripts for microbiome analysisβ12Jul 25, 2024Updated 2 years ago
- Assessing the quality of prokaryotic genomes, filtering and dereplicationβ11Aug 26, 2022Updated 4 years ago
- Small pipeline to cluster viral genomes based on their k-mer content. WiPβ21Jul 3, 2026Updated last month
- Managed Kubernetes at scale on DigitalOcean β’ AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- β15Oct 14, 2023Updated 2 years ago
- AMR/VF LGT focused bacterial genomics analysis workflowβ28Feb 19, 2026Updated 6 months ago
- BEAV: Bacterial Element Annotation reVampedβ77Aug 21, 2025Updated last year
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.β154Jul 24, 2026Updated last month
- Grabbing genome accessions & download info based on taxonomy, using the NCBI REST API, w00tβ12Feb 23, 2025Updated last year
- Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.β110Jan 22, 2026Updated 7 months ago
- gNOMO2 allows integrated multi-omics analyses of microbiomesβ15Aug 7, 2024Updated 2 years ago
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmidsβ670Aug 7, 2026Updated 3 weeks ago
- β18Jun 5, 2026Updated 2 months ago
- Managed hosting for WordPress and PHP on Cloudways β’ AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- MetaWIBELE: Workflow to Identify novel Bioactive Elements in microbiomeβ23Nov 25, 2025Updated 9 months ago
- A hybrid assembly and MAG recovery pipeline (and more!)β118Updated this week
- Bacterial GWAS analysisβ58Jun 12, 2026Updated 2 months ago
- β53Jun 26, 2026Updated 2 months ago
- VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assembliesβ153Updated this week
- Fast tool to build the core genome of prokaryotic genomes. Can handle large datasets. Dependencis: Usearch & Numpyβ10Nov 26, 2025Updated 9 months ago
- Python package for detection of chimerism and contamination in prokaryotic genomes.β94May 11, 2026Updated 3 months ago
- Protologgger is a tool for the description of novel taxa by providing taxonomic, functional and ecological insightsβ17Nov 24, 2025Updated 9 months ago
- Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can bβ¦β157Updated this week
- 1-Click AI Models by DigitalOcean Gradient β’ AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Protocol for finding informative protein families and then using them to score omic samplesβ19Jul 27, 2022Updated 4 years ago
- The gview wiki migrated to GitHub.β12Sep 3, 2020Updated 5 years ago
- A comprehensive prokaryotic genome annotation pipelineβ91Aug 18, 2026Updated 2 weeks ago
- GenoVi, an automated customizable circular genome visualizer for bacteria and archaeaβ110Jun 25, 2023Updated 3 years ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.β62Updated this week
- Rapid determination of appropriate reference genomes.β103Jan 22, 2025Updated last year
- A comprehensive and intuitive encapsulated OO class system for analyzing bacterial pangenomes in R.β28Feb 14, 2023Updated 3 years ago
- An updated pipeline for pangenome investigationβ374Jul 2, 2026Updated last month
- Taxonomic Reconstruction and Analysis of NGS Amplicons - A pipeline based on EMU, a taxonomic profiler optimized for long 16S rRNA readsβ¦β22Jun 16, 2026Updated 2 months ago
- 1-Click AI Models by DigitalOcean Gradient β’ AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- A Nextflow pipeline designed to classify, align and assemble nanopore metagenomic reads.β17Mar 18, 2025Updated last year
- Reorients assembled microbial sequencesβ145Jun 30, 2026Updated 2 months ago
- Plot microbiome time series in parallelβ27Nov 7, 2023Updated 2 years ago
- Spaghetti: in situ analysis of 16S rRNA amplicons obtained by nanopore sequencingβ20Jul 26, 2024Updated 2 years ago
- Lemur is a tool for rapid and accurate taxonomic profiling on long-read metagenomic datasetsβ25Apr 30, 2026Updated 4 months ago
- A modular end-to-end suite for in silico recovery, clustering, and analysis of prokaryotic, microeukaryotic, and viral genomes from metagβ¦β107Jul 14, 2026Updated last month
- tool to determine optimal refrerence genome given a set of fasta filesβ15May 18, 2023Updated 3 years ago