trevorcousins / cobraaLinks
cobraa (coalescent based reconstruction of ancient admixture): a hidden Markov model to infer ghost admixture using just a diploid sequence.
☆21Updated 5 months ago
Alternatives and similar repositories for cobraa
Users that are interested in cobraa are comparing it to the libraries listed below
Sorting:
- predicting DFE and alpha from polymorphism data☆27Updated 7 years ago
- Sampling and inference of genealogies with recombination☆46Updated 4 months ago
- Graph-aware Retrieval of Selective Sweeps☆22Updated last year
- ARG-based inference of selection using deep learning☆18Updated 2 years ago
- Infer demographic history with the Moran model☆49Updated 5 months ago
- Tools and Utilities for msmc and msmc2☆49Updated 3 months ago
- SelectionHapStats is a repository of Python scripts written to identify natural selection events in the genome and R scripts written to v…☆27Updated 7 years ago
- wgd v2: a suite of tools to uncover and date ancient polyploidy and whole-genome duplication☆37Updated 9 months ago
- Likelihood-based Selective Sweep Detection☆40Updated 2 years ago
- ☆53Updated 5 months ago
- Tutorial on using popular tools for learning about population history☆52Updated 7 years ago
- ☆24Updated 8 years ago
- RAiSD: software to detect positive selection based on multiple signatures of a selective sweep and SNP vectors☆36Updated 2 years ago
- Identification of transposable element families from pangenome polymorphisms☆53Updated 5 months ago
- A python script for finding telomeric repeats (TTAGGG/CCCTAA) in FASTA files☆34Updated 3 years ago
- ☆45Updated last month
- loco-pipe is an automated Snakemake pipeline that streamlines a set of essential population genomic analyses for low-coverage whole genom…☆25Updated 3 weeks ago
- Predicts adaptive introgression using a CNN trained on genotype matrices.☆17Updated last year
- R Package to Estimate Variable Recombination Rates using Population Genetic Data☆42Updated 6 years ago
- Pan-genome Construction and Population Structure Variation Calling pipeline☆44Updated last year
- Scripts to analyze data using TreeMix. This pipeline runs TreeMix with bootstrapping, helps choose number of migration events and creates…☆39Updated last year
- ☆25Updated last year
- Ancestry_HMM-S is program designed to infer adaptive introgression from population genomic data☆19Updated 2 years ago
- Topology weighting from unphased genotypes of any ploidy☆17Updated 3 months ago
- Integrate multiple genome assemblies into a pangenome graph☆35Updated 3 years ago
- Assessing confidence in introgression among four populations☆27Updated 4 years ago
- Draw a dot plot from a paf alignment☆35Updated 2 months ago
- An accurate and widely applicable pangenome graph-based variant genotyper for diploid and polyploid genomes☆42Updated last month
- Genealogical Estimation of Variant Age (GEVA)☆31Updated 4 years ago
- R functions for generating site frequency spectra (SFS) from a VCF file.☆28Updated 5 years ago