Recombination-free trees
☆72Apr 26, 2026Updated 2 months ago
Alternatives and similar repositories for Verticall
Users that are interested in Verticall are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Genomewide Epistasis Analysis on Bacteria☆15May 13, 2025Updated last year
- Plasmid analysis using rearrangement distances☆56Updated this week
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆109Jun 2, 2026Updated last month
- Split k-mer analysis – version 2☆105Jul 9, 2026Updated last week
- Bifrost graph gene caller.☆98Jun 18, 2026Updated last month
- 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 short-read polishing tool for long-read assemblies☆218Sep 19, 2025Updated 10 months ago
- Universal and efficient structure-based core gene phylogeny with Foldseek and ProstT5☆90Mar 12, 2026Updated 4 months ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆65Jun 16, 2025Updated last year
- Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)☆41Apr 17, 2024Updated 2 years ago
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆259May 13, 2026Updated 2 months ago
- Fast pairwise transmission inference from single genome and/or metagenomic data☆38Updated this week
- Pipeline for analysing intergenic regions in bacteria☆39Oct 25, 2019Updated 6 years ago
- Build a partitioned pangenome graph from microbial genomes☆307Jul 10, 2026Updated last week
- Split Kmer Analysis☆67May 26, 2022Updated 4 years ago
- AI Agents on 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.
- Follow up to Grace Blackwell's 661k dataset, for 2023☆147Jun 10, 2026Updated last month
- BRICK creates a BRIG-like interactive data visualisation for bacterial genome annotations and comparisons☆22Dec 9, 2025Updated 7 months ago
- ☆33Updated this week
- Reorients assembled microbial sequences☆143Jun 30, 2026Updated 3 weeks ago
- A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolates☆15Aug 26, 2024Updated last year
- Bayesian inference of ancestral dates on bacterial phylogenetic trees☆99Dec 9, 2025Updated 7 months ago
- NCBI Pathogen Detection Portal toolkit☆11Sep 6, 2023Updated 2 years ago
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆88Jul 7, 2026Updated 2 weeks ago
- Standalone Python re-implementation of the POLCA polisher from MaSuRCA☆47Aug 20, 2025Updated 11 months 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.
- Pan-genome inference and genotyping with long noisy or short accurate reads☆119Dec 13, 2024Updated last year
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆60Nov 3, 2023Updated 2 years ago
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆151Jul 4, 2026Updated 2 weeks ago
- plasmidVerify: plasmid contig verification tool☆15Apr 30, 2020Updated 6 years ago
- Microbial agile accurate SNP Typer☆30Dec 27, 2023Updated 2 years ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 3 years ago
- Finding regions of similarity between plasmids☆17Updated this week
- PyO3 bindings and Python interface to sylph, an ultrafast method for containment ANI querying and taxonomic profiling.☆20Dec 12, 2024Updated last year
- SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.☆16Apr 29, 2022Updated 4 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.
- Assemble bacterial isolate genomes from Nanopore reads☆136Jan 22, 2025Updated last year
- software to identify primers that can distinguish genomes☆20Jan 23, 2026Updated 5 months ago
- A tool for generating consensus long-read assemblies for bacterial genomes☆234Updated this week
- A tool to detect acquired AMR genes directly from long read sequencing data.☆28Jan 31, 2026Updated 5 months ago
- ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.☆314Feb 3, 2026Updated 5 months ago
- post processing of bacterial pangenome gene presence/absence matrices☆67Jan 19, 2026Updated 6 months ago
- Inferring global and local strict molecular clocks using root-to-tip regression☆20Jun 30, 2026Updated 3 weeks ago