Prediction fitness of leaves on a genealogical tree
☆12May 7, 2015Updated 10 years ago
Alternatives and similar repositories for FitnessInference
Users that are interested in FitnessInference are comparing it to the libraries listed below
Sorting:
- Inferring spatiotemporal dynamics of H5N1 influenza from sequence data☆10Sep 6, 2013Updated 12 years ago
- Scalable relaxed clock phylogenetic dating☆28Sep 3, 2025Updated 6 months ago
- Inference of putative transmission phylogenetic clusters☆12Oct 13, 2020Updated 5 years ago
- A multi-algorithmic framework for phylogenetic inference☆14Nov 28, 2025Updated 3 months ago
- A collection of documented examples using TreeTime☆22Jul 30, 2019Updated 6 years ago
- A phylogeny dating method using least-squares algorithms and criteria☆32Oct 25, 2024Updated last year
- 🧬 Viral genome reference alignment☆12Jan 26, 2021Updated 5 years ago
- ☆12May 12, 2019Updated 6 years ago
- Coalescent simulation and likelihood for phylodynamic inference☆14May 15, 2025Updated 9 months ago
- machine learning guided antigenic evolution prediction☆12Jun 19, 2023Updated 2 years ago
- Virus reassortment inference software. Infers both recent and ancestral reassortment and uses flexible molecular clock constraints.☆22Sep 29, 2025Updated 5 months ago
- Consensus sequences for U.S. H5N1 clade 2.3.4.4b☆37Updated this week
- R Data Exploration for Serratus☆15Mar 29, 2023Updated 2 years ago
- ☆18Jun 11, 2024Updated last year
- ☆15Jan 10, 2023Updated 3 years ago
- Racmacs R package for performing antigenic cartography☆24Jun 27, 2024Updated last year
- Observed substitution counts of SARS-CoV-2 compared to those expected under the mutation rates☆21Nov 8, 2024Updated last year
- Python tool to reduce size and redundancy of phylogenetic datasets☆49Dec 5, 2025Updated 3 months ago
- Code for the paper "Learning the fitness dynamics of pathogens from phylogenies"☆23Feb 26, 2026Updated last week
- Inferring spatiotemporal dynamics of the H1N1 influenza pandemic from sequence data☆33Oct 25, 2013Updated 12 years ago
- Phylogenetic Clustering by Linear Integer Programming (PhyCLIP)☆19Oct 27, 2020Updated 5 years ago
- ☆20Nov 18, 2021Updated 4 years ago
- PhyDyn: Epidemiological modelling in BEAST☆21Dec 22, 2022Updated 3 years ago
- R tools for posterior analyses using BEAST☆20Apr 10, 2019Updated 6 years ago
- ☆18Oct 3, 2025Updated 5 months ago
- Scripts. config, and snakefiles for seasonal-flu nextstrain builds☆58Feb 25, 2026Updated last week
- Source files for online resources of Bioinformatics of Infectious Diseases course☆22May 21, 2020Updated 5 years ago
- Nextstrain build for avian influenza viruses☆27Feb 13, 2026Updated 3 weeks ago
- An R package with toolkits for tong's friends☆11Mar 18, 2025Updated 11 months ago
- ☆16Aug 17, 2023Updated 2 years ago
- A forward-time simulator for gene sequences modeling a variety of mutation and selection processes.☆20Aug 23, 2023Updated 2 years ago
- Official repository for the paper "Learning from pre-pandemic data to forecast viral antibody escape"☆70Oct 11, 2023Updated 2 years ago
- An experimental framework that democratizes access to distributed serverless compute.☆25Feb 25, 2026Updated last week
- R package for studying phylogenetically-informed movements (Dellicour et al. 2016, Bioinformatics; Dellicour et al., submitted)☆37Feb 27, 2026Updated last week
- VIRULIGN: fast codon-correct alignment and annotation of viral genomes☆35Apr 2, 2021Updated 4 years ago
- A Python package for amino acid sequence analysis. Proforma 2.1 complicant.☆14Feb 6, 2026Updated last month
- Ancestral character reconstruction and visualisation for rooted phylogenetic trees☆38Feb 26, 2026Updated last week
- Import script needed to build FluPRINT database from source☆11May 23, 2019Updated 6 years ago
- Flutrack platform gathers flu related tweets from the entire world, with searching tag, words that are influenza synonyms and flu symptom…☆13Apr 22, 2019Updated 6 years ago