A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs
☆35Dec 4, 2025Updated 6 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:
- 🦠🧬🧑💻📇 Microbial genomes-to-report pipeline☆74Mar 14, 2026Updated 3 months ago
- screening metagenomes for arbitrary lineages, using gene-centric assembly methods and phylogenetics☆10Oct 29, 2020Updated 5 years ago
- scripts for microbiome analysis☆12Jul 25, 2024Updated last year
- Assessing the quality of prokaryotic genomes, filtering and dereplication☆11Aug 26, 2022Updated 3 years ago
- Small pipeline to cluster viral genomes based on their k-mer content. WiP☆19May 28, 2026Updated 3 weeks ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- ☆15Oct 14, 2023Updated 2 years ago
- AMR/VF LGT focused bacterial genomics analysis workflow☆28Feb 19, 2026Updated 3 months ago
- BEAV: Bacterial Element Annotation reVamped☆77Aug 21, 2025Updated 9 months ago
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆151Updated this week
- Grabbing genome accessions & download info based on taxonomy, using the NCBI REST API, w00t☆12Feb 23, 2025Updated last year
- Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.☆107Jan 22, 2026Updated 4 months ago
- gNOMO2 allows integrated multi-omics analyses of microbiomes☆15Aug 7, 2024Updated last year
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmids☆652May 15, 2026Updated last month
- MetaWIBELE: Workflow to Identify novel Bioactive Elements in microbiome☆23Nov 25, 2025Updated 6 months ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- ☆17Jun 5, 2026Updated last week
- A hybrid assembly and MAG recovery pipeline (and more!)☆107Jun 12, 2026Updated last week
- ☆51May 22, 2026Updated 3 weeks ago
- VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies☆152Jun 9, 2026Updated last week
- Fast tool to build the core genome of prokaryotic genomes. Can handle large datasets. Dependencis: Usearch & Numpy☆10Nov 26, 2025Updated 6 months ago
- Python package for detection of chimerism and contamination in prokaryotic genomes.☆90May 11, 2026Updated last month
- Bacterial GWAS analysis☆56Updated this week
- Protologgger is a tool for the description of novel taxa by providing taxonomic, functional and ecological insights☆18Nov 24, 2025Updated 6 months ago
- Rapid & standardized genome annotation using protein structural information☆68Jun 12, 2026Updated last week
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can b…☆155Oct 2, 2025Updated 8 months ago
- Protocol for finding informative protein families and then using them to score omic samples☆19Jul 27, 2022Updated 3 years ago
- A comprehensive prokaryotic genome annotation pipeline☆87Jun 3, 2026Updated 2 weeks ago
- The gview wiki migrated to GitHub.☆12Sep 3, 2020Updated 5 years ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆57May 24, 2026Updated 3 weeks ago
- GenoVi, an automated customizable circular genome visualizer for bacteria and archaea☆107Jun 25, 2023Updated 2 years ago
- Rapid determination of appropriate reference genomes.☆101Jan 22, 2025Updated last year
- An updated pipeline for pangenome investigation☆361Jun 2, 2026Updated 2 weeks ago
- A comprehensive and intuitive encapsulated OO class system for analyzing bacterial pangenomes in R.☆28Feb 14, 2023Updated 3 years 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.
- a command line tool for viral proteomic tree generation, part of the ViPTree project: http://www.genome.jp/viptree☆36May 25, 2026Updated 3 weeks ago
- A Nextflow pipeline designed to classify, align and assemble nanopore metagenomic reads.☆17Mar 18, 2025Updated last year
- Reorients assembled microbial sequences☆138Jun 5, 2026Updated last week
- Plot microbiome time series in parallel☆27Nov 7, 2023Updated 2 years ago
- Spaghetti: in situ analysis of 16S rRNA amplicons obtained by nanopore sequencing☆20Jul 26, 2024Updated last year
- Trimming tool for Oxford Nanopore sequence data☆22Jun 22, 2021Updated 4 years ago
- tool to determine optimal refrerence genome given a set of fasta files☆15May 18, 2023Updated 3 years ago