Virus reassortment inference software. Infers both recent and ancestral reassortment and uses flexible molecular clock constraints.
☆23Sep 29, 2025Updated 11 months ago
Alternatives and similar repositories for TreeSort
Users that are interested in TreeSort are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Influenza data pipeline to automate genotyping assignment☆45Mar 19, 2026Updated 5 months ago
- Consensus sequences for U.S. H5N1 clade 2.3.4.4b☆38Updated this week
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Jun 9, 2026Updated 2 months ago
- Main development repository for SpreadGL☆24Jun 18, 2026Updated 2 months ago
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆45Jul 2, 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.
- R package for studying phylogenetically-informed movements (Dellicour et al. 2016, Bioinformatics; Dellicour et al. 2026, Bioinformatics)☆43Jul 31, 2026Updated 3 weeks ago
- Simple Manipulation Of Trees☆14Aug 16, 2025Updated last year
- FluMut is a command-line tool to find markers of interest in H5N1 avian influenza viruses.☆15Updated this week
- The Whole Genome Sequencing Coverage Plot (wgscovplot) is a tool to generate HTML Interactive Coverage Plot given coverage depth informat…☆19May 3, 2024Updated 2 years ago
- Visualization of Viral Genetic Reassortment☆21Updated this week
- A forward-time simulator for gene sequences modeling a variety of mutation and selection processes.☆22Aug 23, 2023Updated 3 years ago
- A multi-algorithmic framework for phylogenetic inference☆14Updated this week
- Java software to analyse phylogeny-trait correlations in discrete traits, accounting for phylogenetic uncertainty via posterior sampling.☆14Sep 26, 2017Updated 8 years ago
- Inference framework for serological data☆20Jul 16, 2026Updated last month
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- Hybridization probe design for targeted genomic sequencing of diverse and hypervariable viral taxa☆25May 30, 2023Updated 3 years ago
- Repository containing a method for automatically identifying pathogen lineages from a phylogeny.☆17May 19, 2023Updated 3 years ago
- Munge GenBank files into FASTA and tab-separated metadata☆15Feb 5, 2026Updated 6 months ago
- Material for the lecture Statistical Computing☆12Jan 1, 2026Updated 7 months ago
- Influenza genome analysis Nextflow workflow☆33Sep 15, 2025Updated 11 months ago
- A collection of documented examples using TreeTime☆22Jul 30, 2019Updated 7 years ago
- Bioinformatics Training Platform (BTP) Workshop: Introduction to NGS☆10Oct 31, 2018Updated 7 years ago
- Influenza genome analysis Nextflow workflow☆27Jun 3, 2026Updated 2 months ago
- A high-performance in-silico PCR tool for primer matching and product extraction from FASTA and GenBank sequences.☆18Feb 25, 2026Updated 6 months 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.
- Racmacs R package for performing antigenic cartography☆24Jul 8, 2026Updated last month
- Prediction fitness of leaves on a genealogical tree☆12May 7, 2015Updated 11 years ago
- Fast viral consensus genome reconstruction☆27Jun 19, 2026Updated 2 months ago
- Code and data used in Mollentze et al. (2021) "Identifying and prioritizing potential human-infecting viruses from their genome sequences…☆19Apr 15, 2026Updated 4 months ago
- Welcome to the StrainHub Repo - Files and Data - StrainHub Online:☆18Jun 26, 2022Updated 4 years ago
- Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens☆42Apr 6, 2026Updated 4 months ago
- High Resolution Melt Analysis in Python☆20Mar 22, 2022Updated 4 years ago
- Observed substitution counts of SARS-CoV-2 compared to those expected under the mutation rates☆22Aug 6, 2026Updated 3 weeks ago
- Processing and analysis of data coming from Illumina sequencing machines☆11Aug 20, 2026Updated last week
- 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.
- Primalscheme3. Generation of highly multiplex primerschemes☆27Dec 4, 2025Updated 8 months ago
- Opinionated viral metagenomics workflow☆17Aug 16, 2026Updated 2 weeks ago
- Fast inference for Generalised Linear Mixed Models.☆14Jan 17, 2025Updated last year
- Utilities and distributions for (birth-death) skyline models.☆10Aug 27, 2019Updated 7 years ago
- The R package 'phylosamp' implements novel tools that estimate the probability of transmission between two cases given phylogenetic linka…☆14May 23, 2023Updated 3 years ago
- MIRA: Portable, Interactive Application for High-Quality Influenza, SARS-CoV-2 and RSV Genome Assembly, Annotation, and Curation☆25Updated this week
- Scripts, HMMs and search databases for identifying and classifying viral RdRp sequences☆16Aug 6, 2026Updated 3 weeks ago