Simple Manipulation Of Trees
☆14Aug 16, 2025Updated 11 months ago
Alternatives and similar repositories for smot
Users that are interested in smot are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Script that labels phylogenetic clades based on the clade of the nearest neighbor using patristic distances determined from the tree.☆15Dec 11, 2024Updated last year
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆42Jul 2, 2026Updated 3 weeks ago
- Explore and analyze biological sequence data☆17Aug 1, 2024Updated last year
- Repository containing a method for automatically identifying pathogen lineages from a phylogeny.☆17May 19, 2023Updated 3 years ago
- A protein language model for learning the SARS-CoV-2 fitness landscape☆16Apr 22, 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.
- Data and scripts for Zika virus tutorial☆10Updated this week
- A Rust-based library for phylogenetic analysis and manipulation☆21Updated this week
- Virus reassortment inference software. Infers both recent and ancestral reassortment and uses flexible molecular clock constraints.☆23Sep 29, 2025Updated 9 months ago
- Tool for analysing viral diversity from High Throughput Sequencing☆12Nov 20, 2025Updated 8 months ago
- FluMut is a command-line tool to find markers of interest in H5N1 avian influenza viruses.☆15Updated this week
- Main development repository for SpreadGL☆23Jun 18, 2026Updated last month
- ☆30Mar 6, 2025Updated last year
- Snakemake workflow management system and CLI generation tool☆67Oct 22, 2025Updated 9 months ago
- SARS-CoV-2 workflow for nanopore sequence data☆42Jul 17, 2026Updated last week
- 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.
- ☆11Jun 29, 2023Updated 3 years ago
- Collection of R scripts for SARS-CoV-2 (variant) analyses☆12Mar 2, 2023Updated 3 years ago
- Bayesian estimation supersedes the t-test☆16Aug 7, 2024Updated last year
- finding conserved regions in highly diverse genomes☆16May 25, 2026Updated 2 months ago
- SARS-CoV-2: detecting recombinations in viruses using large data sets with high sequence similarity☆13Aug 14, 2023Updated 2 years ago
- MIRA: Portable, Interactive Application for High-Quality Influenza, SARS-CoV-2 and RSV Genome Assembly, Annotation, and Curation☆25Updated this week
- app to collapse Pango lineages for reporting☆13Dec 9, 2025Updated 7 months ago
- baltic - backronymed adaptable lightweight tree import code for molecular phylogeny manipulation, analysis and visualisation. Development…☆126Updated this week
- Phylogenetic Likelihood Library 2 - experimental☆11May 12, 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.
- Summarise nucleotide counts at a set of positions in a BAM file to search for mixtures☆13Apr 5, 2022Updated 4 years ago
- Repository of common bioinformatics scripts☆39Sep 21, 2021Updated 4 years ago
- Code for the paper "Learning the fitness dynamics of pathogens from phylogenies"☆25Feb 26, 2026Updated 4 months ago
- A tool in order to accurately remove primer sequences from NGS reads in an amplicon experiment☆20Nov 12, 2025Updated 8 months ago
- Rapid analysis and visualization of coronavirus genome variation☆48Apr 2, 2026Updated 3 months ago
- An open-source pathogen sequence database dedicated to equitable sharing, transparent governance, & empowering global public health.☆57Updated this week
- R package for studying phylogenetically-informed movements (Dellicour et al. 2016, Bioinformatics; Dellicour et al. 2026, Bioinformatics)☆43Mar 24, 2026Updated 4 months ago
- Tool to submit viral sequences to Genbank.☆16May 14, 2026Updated 2 months ago
- Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of viral pathogens of concern, es…☆42Aug 5, 2024Updated last year
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- MAPLE - a new approximate approach for maximum likelihood phylogenetics at short divergence.☆65Mar 15, 2026Updated 4 months ago
- Analysis of the population diversity of SARS-CoV-2 within and between individual patients☆15Apr 30, 2020Updated 6 years ago
- Extend GHC's type checker with user-defined rules, without writing a type checker plugin.☆19Sep 20, 2021Updated 4 years ago
- Course materials for an introduction to SARS-CoV-2 sequencing data analysis☆14Aug 15, 2024Updated last year
- Small pipeline to cluster viral genomes based on their k-mer content. WiP☆21Jul 3, 2026Updated 3 weeks ago
- A page to test short term memory.☆14Sep 29, 2023Updated 2 years ago
- toolkit for file system virtualisation of random access compressed FASTA, FAI, DICT & TWOBIT files☆22Updated this week