Hybridization detection using phylogenetic invariants
☆52Oct 29, 2024Updated last year
Alternatives and similar repositories for HyDe
Users that are interested in HyDe are comparing it to the libraries listed below
Sorting:
- Quantifying Introgression via Branch Lengths☆56Sep 30, 2022Updated 3 years ago
- Fast calculation of Patterson's D (ABBA-BABA) and the f4-ratio statistics across many populations/species☆185Dec 19, 2024Updated last year
- DFOIL: Introgression Testing for Five Taxa☆33May 15, 2021Updated 4 years ago
- a tool to identify species and inter-species hybrids and chromosome copy number variants from short-read data☆19Sep 13, 2019Updated 6 years ago
- Topology weighting by iterative sampling of sub-trees☆86Jan 5, 2025Updated last year
- D Frequency Spectrum: Signatures of introgression across the allele frequency spectrum☆19Sep 19, 2020Updated 5 years ago
- General tools for genomic analyses.☆386Feb 28, 2025Updated last year
- Quartet Sampling method for phylogenetic branch support evaluation☆19Feb 26, 2024Updated 2 years ago
- Automatically exported from code.google.com/p/densitree☆29Jul 27, 2025Updated 7 months ago
- R package for analysis of hybrids and hybrid zones☆21Dec 30, 2023Updated 2 years ago
- ☆44Sep 5, 2023Updated 2 years ago
- CoalHMM☆22Nov 4, 2013Updated 12 years ago
- Simple and flexible manipulation of genomic data.☆16Apr 16, 2025Updated 10 months ago
- Coalescent Likelihood Under Effects of Selection - Inferring selection & allele frequency trajectories from nucleotide data☆26Jul 8, 2022Updated 3 years ago
- ☆23May 26, 2023Updated 2 years ago
- This is a tool for speculation of ancestral allel, calculation of sfs and drawing its bar plot. It is easy-to-use and runing fast. What y…☆11Dec 16, 2022Updated 3 years ago
- Pipelines to run STRUCTURE using multiple front-ends (CLUMPAK+StrAuto, Structure_threader)☆12Oct 5, 2020Updated 5 years ago
- Perl script for manipulating multiple sequence alignments for phylogenetic reconstruction☆11Sep 29, 2014Updated 11 years ago
- G-PhoCS is a software package for inferring ancestral population sizes, population divergence times, and migration rates from individual …☆34Apr 27, 2021Updated 4 years ago
- Effective selection of population size projection for construction of the site frequency spectrum. Convert VCF to dadi/fastsimcoal style …☆170Aug 8, 2024Updated last year
- Tools test whether admixture occurred and more☆220Sep 6, 2024Updated last year
- SMC++ infers population history from whole-genome sequence data.☆173Jan 20, 2024Updated 2 years ago
- Accurate Species TRee ALgorithm☆273Apr 1, 2024Updated last year
- ☆13Sep 11, 2025Updated 5 months ago
- PhyloNetworks: a julia package with utilities for phylogenetic networks☆171Feb 17, 2026Updated 2 weeks ago
- Code for computing various support scores for internodes☆19Apr 7, 2020Updated 5 years ago
- predicting DFE and alpha from polymorphism data☆28Oct 4, 2018Updated 7 years ago
- Tutorial on using popular tools for learning about population history☆53Jul 18, 2018Updated 7 years ago
- ☆12Nov 23, 2020Updated 5 years ago
- NOVOPlasty - The organelle assembler and heteroplasmy caller☆197Feb 4, 2024Updated 2 years ago
- Short scripts for converting genetic data between formats.☆30Nov 11, 2022Updated 3 years ago
- ☆22Mar 25, 2014Updated 11 years ago
- IMa3☆13May 5, 2025Updated 10 months ago
- Bayesian analysis of genomic sequence data under the multispecies coalescent model☆111Feb 17, 2026Updated 2 weeks ago
- Haplotype based scans for selection☆140Feb 23, 2026Updated last week
- A tool to infer species tree and phylogenetic network from multilocus data☆32Jul 2, 2020Updated 5 years ago
- ☆37Nov 30, 2023Updated 2 years ago
- Ancestry_HMM-S is program designed to infer adaptive introgression from population genomic data☆19Sep 25, 2023Updated 2 years ago
- Analyze and simulate Pool-Seq time series data☆17Jun 16, 2022Updated 3 years ago