gtonkinhill / panarooView external linksLinks
An updated pipeline for pangenome investigation
☆341Jan 15, 2026Updated 3 weeks ago
Alternatives and similar repositories for panaroo
Users that are interested in panaroo are comparing it to the libraries listed below
Sorting:
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmids☆606Updated this week
- Build a partitioned pangenome graph from microbial genomes☆293Dec 17, 2025Updated last month
- Bifrost graph gene caller.☆98Jan 20, 2026Updated 3 weeks ago
- Reorients assembled microbial sequences☆132Aug 21, 2025Updated 5 months ago
- a short-read polishing tool for long-read assemblies☆206Sep 19, 2025Updated 4 months ago
- Rapid large-scale prokaryote pan genome analysis☆369Nov 3, 2025Updated 3 months ago
- AMRFinderPlus - Identify AMR genes and point mutations, and virulence and stress resistance genes in assembled bacterial nucleotide and p…☆350Jan 31, 2026Updated 2 weeks ago
- post processing of bacterial pangenome gene presence/absence matrices☆63Jan 19, 2026Updated 3 weeks ago
- Create a tree using Mash distances☆182Oct 24, 2023Updated 2 years ago
- A tool for the identification of coincident (associating and dissociating) genes in pangenomes.☆110Oct 20, 2023Updated 2 years ago
- geNomad: Identification of mobile genetic elements☆286Nov 10, 2025Updated 3 months ago
- A tool for generating consensus long-read assemblies for bacterial genomes☆339Sep 11, 2025Updated 5 months ago
- A toolbox for pangenome analysis and threshold evaluation.☆99Jul 8, 2022Updated 3 years ago
- A tool for generating consensus long-read assemblies for bacterial genomes☆216Feb 4, 2026Updated last week
- Rapid comparison and dereplication of genomes☆326Nov 10, 2025Updated 3 months ago
- Read alignment statistics for metagenomics☆387Jan 16, 2026Updated 3 weeks ago
- Gene cluster comparison figure generator☆633Dec 22, 2025Updated last month
- 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…☆149Oct 2, 2025Updated 4 months ago
- hybrid assembly pipeline for bacterial genomes☆632Jul 25, 2024Updated last year
- Rapid haploid variant calling and core genome alignment☆564Dec 12, 2025Updated 2 months ago
- Synteny and Rearrangement Identifier☆447Apr 29, 2025Updated 9 months ago
- Mass screening of contigs for antimicrobial and virulence genes☆475Jan 31, 2026Updated 2 weeks ago
- PANgenome with Annotations, COre identification, Tree and corresponding Alignments☆80Sep 20, 2023Updated 2 years ago
- Pan-genome inference and genotyping with long noisy or short accurate reads☆119Dec 13, 2024Updated last year
- A flexible pipeline for complete analysis of bacterial genomes☆496Dec 19, 2025Updated last month
- Pan-genome wide association studies☆207May 29, 2024Updated last year
- Assemble bacterial isolate genomes from Nanopore reads☆127Jan 22, 2025Updated last year
- Tools for fast and flexible genome assembly scaffolding and improvement☆554Feb 14, 2024Updated 2 years ago
- Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.☆122Jan 22, 2025Updated last year
- Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins☆211Aug 27, 2025Updated 5 months ago
- BSR-Based Allele Calling Algorithm☆148Feb 2, 2026Updated last week
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆146Jan 9, 2026Updated last month
- Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes☆401Jun 12, 2025Updated 8 months ago
- ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.☆290Feb 3, 2026Updated last week
- A tool to circularize genome assemblies☆252Apr 6, 2024Updated last year
- De novo genome assembler for long uncorrected reads☆229Nov 15, 2023Updated 2 years ago
- A grammar of graphics for comparative genomics☆742Feb 5, 2026Updated last week
- Antimicrobial Resistance Identification By Assembly☆184Oct 12, 2023Updated 2 years ago
- Rapid determination of appropriate reference genomes.☆99Jan 22, 2025Updated last year