Pan-genome wide association studies
☆210May 29, 2024Updated last year
Alternatives and similar repositories for Scoary
Users that are interested in Scoary are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins☆215Aug 27, 2025Updated 7 months ago
- an interactive viewer for populations of bacterial genomes linked by a phylogeny☆131Feb 26, 2024Updated 2 years ago
- Rapid large-scale prokaryote pan genome analysis☆374Nov 3, 2025Updated 4 months ago
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes☆121May 21, 2024Updated last year
- Interactive, web tool for exploring pan-genome of bacterial strains☆49Jan 14, 2026Updated 2 months ago
- DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Locus and lineage tests for bacterial GWAS☆28Oct 5, 2017Updated 8 years ago
- Pipeline for analysing intergenic regions in bacteria☆39Oct 25, 2019Updated 6 years ago
- Pairwise SNP distance matrix from a FASTA sequence alignment☆153Dec 31, 2025Updated 2 months ago
- An updated pipeline for pangenome investigation☆351Jan 15, 2026Updated 2 months ago
- Bayesian inference of ancestral dates on bacterial phylogenetic trees☆97Dec 9, 2025Updated 3 months ago
- SEER, reimplemented in python 🐍🔮☆131Updated this week
- Calculate assocations between genes and traits☆29Mar 10, 2025Updated last year
- Rapid haploid variant calling and core genome alignment☆575Dec 12, 2025Updated 3 months ago
- treeWAS: A Phylogenetic Tree-Based Tool for Genome-Wide Association Studies in Microbes☆106Feb 6, 2025Updated last year
- NordVPN Special Discount Offer • AdSave on top-rated NordVPN 1 or 2-year plans with secure browsing, privacy protection, and support for for all major platforms.
- Scan contig files against PubMLST typing schemes☆269Updated this week
- post processing of bacterial pangenome gene presence/absence matrices☆64Jan 19, 2026Updated 2 months ago
- Create a tree using Mash distances☆184Oct 24, 2023Updated 2 years ago
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmids☆613Feb 18, 2026Updated last month
- "Reads to report" for public health and clinical microbiology☆142Dec 9, 2025Updated 3 months ago
- Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.☆193Mar 6, 2026Updated 3 weeks ago
- Mass screening of contigs for antimicrobial and virulence genes☆484Jan 31, 2026Updated last month
- Build a partitioned pangenome graph from microbial genomes☆296Updated this week
- Making whole bacterial genome sequencing data analysis easy☆113Apr 22, 2025Updated 11 months ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- ☆86Updated this week
- Antimicrobial Resistance Identification By Assembly☆186Oct 12, 2023Updated 2 years ago
- hybrid assembly pipeline for bacterial genomes☆635Jul 25, 2024Updated last year
- A pipeline for performing genome-wide association tests for bacterial genomes.☆27Apr 11, 2018Updated 7 years 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 b…☆153Oct 2, 2025Updated 5 months ago
- Create your own PanViz visualizations☆21Nov 20, 2017Updated 8 years ago
- Fast genome and metagenome distance estimation using MinHash☆436Sep 19, 2025Updated 6 months ago
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆106Mar 2, 2026Updated 3 weeks ago
- In this repo you will find demos and tutorials prepared by members of the CBIB. Feel free to use them for non-commercial activities given…☆84Apr 1, 2018Updated 7 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting with the flexibility to host WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Cloudways by DigitalOcean.
- A set of scripts for calculating pairwise SNP distance☆45Feb 19, 2026Updated last month
- A tool for generating consensus long-read assemblies for bacterial genomes☆341Sep 11, 2025Updated 6 months ago
- Gene cluster comparison figure generator☆638Dec 22, 2025Updated 3 months ago
- BSR-Based Allele Calling Algorithm☆148Mar 13, 2026Updated 2 weeks ago
- Processing pipeline for pan-genome visulization and exploration☆144Oct 9, 2023Updated 2 years ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆21Feb 15, 2019Updated 7 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆24Sep 7, 2019Updated 6 years ago