hoelzer-lab / ribapView external linksLinks
A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs
β33Dec 4, 2025Updated 2 months ago
Alternatives and similar repositories for ribap
Users that are interested in ribap are comparing it to the libraries listed below
Sorting:
- π¦ π§¬π§βπ»π Microbial genomes-to-report pipelineβ73Nov 11, 2025Updated 3 months ago
- screening metagenomes for arbitrary lineages, using gene-centric assembly methods and phylogeneticsβ11Oct 29, 2020Updated 5 years ago
- scripts for microbiome analysisβ11Jul 25, 2024Updated last year
- Assessing the quality of prokaryotic genomes, filtering and dereplicationβ11Aug 26, 2022Updated 3 years ago
- MetaWIBELE: Workflow to Identify novel Bioactive Elements in microbiomeβ23Nov 25, 2025Updated 2 months ago
- β14Oct 14, 2023Updated 2 years ago
- β50Jan 24, 2026Updated 3 weeks ago
- β17May 13, 2025Updated 9 months ago
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.β147Jan 9, 2026Updated last month
- gNOMO2 allows integrated multi-omics analyses of microbiomesβ15Aug 7, 2024Updated last year
- AMR/VF LGT focused bacterial genomics analysis workflowβ28Apr 5, 2025Updated 10 months ago
- Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.β105Jan 22, 2026Updated 3 weeks ago
- BEAV: Bacterial Element Annotation reVampedβ73Aug 21, 2025Updated 5 months ago
- A hybrid assembly and MAG recovery pipeline (and more!)β104Jan 27, 2026Updated 2 weeks ago
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmidsβ606Feb 9, 2026Updated last week
- Grabbing genome accessions & download info based on taxonomy, using the NCBI REST API, w00tβ12Feb 23, 2025Updated 11 months ago
- Small pipeline to cluster viral genomes based on their k-mer content. WiPβ18Feb 3, 2026Updated last week
- Bacterial GWAS analysisβ46Jan 18, 2026Updated 3 weeks ago
- Fast tool to build the core genome of prokaryotic genomes. Can handle large datasets. Dependencis: Usearch & Numpyβ10Nov 26, 2025Updated 2 months ago
- GenoVi, an automated customizable circular genome visualizer for bacteria and archaeaβ103Jun 25, 2023Updated 2 years ago
- Python package for detection of chimerism and contamination in prokaryotic genomes.β79Nov 23, 2023Updated 2 years ago
- β82Nov 27, 2025Updated 2 months ago
- Rapid determination of appropriate reference genomes.β99Jan 22, 2025Updated last year
- a command line tool for viral proteomic tree generation, part of the ViPTree project: http://www.genome.jp/viptreeβ34Sep 20, 2022Updated 3 years ago
- The gview wiki migrated to GitHub.β11Sep 3, 2020Updated 5 years ago
- A modular end-to-end suite for in silico recovery, clustering, and analysis of prokaryotic, microeukaryotic, and viral genomes from metagβ¦β99Feb 8, 2026Updated last week
- VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assembliesβ146Dec 17, 2025Updated last month
- An updated pipeline for pangenome investigationβ341Jan 15, 2026Updated last month
- Lemur is a tool for rapid and accurate taxonomic profiling on long-read metagenomic datasetsβ25Jul 23, 2025Updated 6 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¦β149Oct 2, 2025Updated 4 months ago
- A pipeline based on EMU, a taxonomic profiler optimized for long 16S rRNA reads.β18Dec 12, 2025Updated 2 months ago
- A Nextflow pipeline designed to classify, align and assemble nanopore metagenomic reads.β17Mar 18, 2025Updated 10 months ago
- Follow up to Grace Blackwell's 661k dataset, for 2023β130Updated this week
- Bin Chicken - recovery of low abundance and taxonomically targeted metagenome assembled genomes (MAGs) through strategic coassemblyβ70Feb 5, 2026Updated last week
- Plot microbiome time series in parallelβ27Nov 7, 2023Updated 2 years ago
- TAXnomic Profile Aggregation and STAndardisationβ41Nov 18, 2025Updated 2 months ago
- Repo for PrimerSchemesβ17Dec 18, 2025Updated last month
- Protologgger is a tool for the description of novel taxa by providing taxonomic, functional and ecological insightsβ17Nov 24, 2025Updated 2 months ago
- Reorients assembled microbial sequencesβ132Aug 21, 2025Updated 5 months ago