Welcome to the StrainHub Repo - Files and Data - StrainHub Online:
☆20Jun 26, 2022Updated 4 years ago
Alternatives and similar repositories for StrainHub
Users that are interested in StrainHub are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Inference of putative transmission phylogenetic clusters☆13Oct 13, 2020Updated 6 years ago
- Nextflow pipeline for generation of phylogenetic trees to be visualized in Auspice.☆11Jan 6, 2026Updated 9 months ago
- A command line tool for quickly visualizing phylogenetic tree via a single command in terminal.☆10Apr 9, 2019Updated 7 years ago
- This repository contains python classes and functions to quickly create a profiling tool for pathogen NGS data☆14Oct 25, 2026Updated last week
- Phylogenetics between and within hosts at once, all along the genome.☆51Oct 2, 2024Updated 2 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- ☆16Jun 30, 2021Updated 5 years ago
- Mycobacterium tuberculosis genomic analysis from Nanopore sequencing data☆15Jun 5, 2026Updated 4 months ago
- A microbial genomic analysis pipeline used by the Djordjevic Lab☆14Feb 9, 2025Updated last year
- Input files and scripts related to our study entitled "Epidemiological hypothesis testing using a phylogeographic and phylodynamic framew…☆13Oct 27, 2024Updated 2 years ago
- Inferring spatiotemporal dynamics of the H1N1 influenza pandemic from sequence data☆34Oct 25, 2013Updated 13 years ago
- Coalescent simulation and likelihood for phylodynamic inference☆17May 15, 2025Updated last year
- ☆13Oct 15, 2026Updated 2 weeks ago
- A snakemake workflow for WGS-based tuberculosis transmission analysis☆20Dec 3, 2024Updated last year
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆35Jul 27, 2026Updated 3 months ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Scalable relaxed clock phylogenetic dating☆29Jul 5, 2026Updated 3 months ago
- Main development repository for SpreadGL☆24Jun 18, 2026Updated 4 months ago
- flu utilities☆12Feb 1, 2023Updated 3 years ago
- Material for a workshop on reproducible science with R and RStudio☆15May 22, 2022Updated 4 years ago
- Disease outbreak reconstruction from epidemiological and genetic data☆36Apr 20, 2026Updated 6 months ago
- Fast viral consensus genome reconstruction☆27Updated this week
- Add biological annotations to variants in a given VCF file.☆33Apr 4, 2026Updated 6 months ago
- Resources for Influenza Research☆25Aug 3, 2022Updated 4 years ago
- The Zika bioinformatics pipeline☆37Mar 29, 2020Updated 6 years 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.
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆31Jul 18, 2025Updated last year
- Pilea: profiling bacterial growth dynamics from metagenomes with sketching☆13Oct 21, 2026Updated last week
- Deep Filter Banks for Texture Recognition, Description and Segmentation (CVPR15)☆10Jan 22, 2018Updated 8 years ago
- Temporal Development of the Gut Microbiome in Early Childhood - The TEDDY Study☆11Jul 13, 2018Updated 8 years ago
- Recording personal workflows used in work, study notes, and summaries of various tools and methods.☆11Oct 9, 2025Updated last year
- ☆11Jan 20, 2022Updated 4 years ago
- A method to improve mappings on circular genomes, using the BWA mapper☆11Mar 4, 2022Updated 4 years ago
- MR project investigating the mediating role of mammographic density in the childhood body size and breast cancer relationship☆11May 14, 2024Updated 2 years ago
- Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of viral pathogens of concern, es…☆42Aug 5, 2024Updated 2 years ago
- Simple, predictable pricing with DigitalOcean hosting • AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- Parallelised and automated construction of metagenomic classifier databases of different tools☆22Updated this week
- Luslab nextflow modules☆14Apr 30, 2021Updated 5 years ago
- ☆20Nov 18, 2021Updated 4 years ago
- Basic Epidemic, Activity, and Response COVID-19 model☆31Jul 6, 2020Updated 6 years ago
- Population analysis PIPEline 🛠🧬☆28Mar 2, 2026Updated 8 months ago
- Reconstruction of transmission trees using genomic data☆72Jul 14, 2026Updated 3 months ago
- 🧬 Viral genome reference alignment☆12Jan 26, 2021Updated 5 years ago