A toolbox for pangenome analysis and threshold evaluation.
☆103Jul 8, 2022Updated 4 years ago
Alternatives and similar repositories for PIRATE
Users that are interested in PIRATE are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆51Sep 23, 2022Updated 4 years ago
- Pipeline for analysing intergenic regions in bacteria☆39Oct 25, 2019Updated 7 years ago
- An updated pipeline for pangenome investigation☆379Oct 26, 2026Updated last week
- A tool for the identification of coincident (associating and dissociating) genes in pangenomes.☆112Oct 20, 2023Updated 3 years ago
- Making whole bacterial genome sequencing data analysis easy☆116Apr 22, 2025Updated last year
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆51Sep 4, 2026Updated last month
- Bifrost graph gene caller.☆102Aug 31, 2026Updated 2 months ago
- Pan-genome inference and genotyping with long noisy or short accurate reads☆121Dec 13, 2024Updated last year
- Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.☆108Jan 22, 2026Updated 9 months ago
- Finding regions of similarity between plasmids☆17Jul 15, 2026Updated 3 months ago
- Order and orientation of complete bacterial genomes☆29Jun 30, 2026Updated 4 months ago
- BSR-Based Allele Calling Algorithm☆153Oct 8, 2026Updated 3 weeks ago
- A pipeline for bioinformatics analysis of bacterial genomes☆33Oct 5, 2026Updated 3 weeks ago
- Calculate assocations between genes and traits☆32Mar 10, 2025Updated last year
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolates☆15Aug 26, 2024Updated 2 years ago
- A tool for generating consensus long-read assemblies for bacterial genomes☆350Jul 24, 2026Updated 3 months ago
- tool to determine optimal refrerence genome given a set of fasta files☆15May 18, 2023Updated 3 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…☆159Sep 2, 2026Updated 2 months ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆50Jan 14, 2026Updated 9 months ago
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆158Jul 24, 2026Updated 3 months ago
- Predict plasmids from uncorrected long read data☆41Feb 27, 2026Updated 8 months ago
- A pipeline for high-quality bacterial genome construction using ONT sequencing☆40Sep 22, 2022Updated 4 years ago
- Reorients assembled microbial sequences☆145Jun 30, 2026Updated 4 months ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Rapid determination of appropriate reference genomes.☆103Jan 22, 2025Updated last year
- Build a partitioned pangenome graph from microbial genomes☆312Updated this week
- A user-friendly workflow for phylogenomics☆235Sep 28, 2026Updated last month
- Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.☆129Oct 22, 2026Updated last week
- 🍗⭐ In silico Legionella pneumophila Sequence Based Typing☆13Feb 8, 2026Updated 8 months ago
- a collection of scripts for organising bacterial genomes by species☆79Mar 18, 2022Updated 4 years ago
- zDB: comparative bacterial genomics made easy☆44Oct 1, 2026Updated last month
- Gene Absence Presence Identification tool.☆27Mar 28, 2025Updated last year
- BEAV: Bacterial Element Annotation reVamped☆78Aug 21, 2025Updated last year
- 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.
- A pipeline for running AMRfinderPlus and collating results into functional classes☆103Updated this week
- Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins☆226Oct 7, 2026Updated 3 weeks ago
- Pairwise SNP distance matrix from a FASTA sequence alignment☆157Dec 31, 2025Updated 10 months ago
- Mass screening of contigs for antimicrobial and virulence genes☆517Jul 17, 2026Updated 3 months ago
- Processing pipeline for pan-genome visulization and exploration☆147Oct 9, 2023Updated 3 years ago
- A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences☆66Oct 26, 2026Updated last week
- Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.☆209Jun 10, 2026Updated 4 months ago