gtiley / PhasingLinks
Pipeline for phasing sequence data in polyploids. Designed for target enrichment data, but probably works with other data too.
☆12Updated last year
Alternatives and similar repositories for Phasing
Users that are interested in Phasing are comparing it to the libraries listed below
Sorting:
- Software for detecting introgression using supervised machine learning☆21Updated 3 years ago
- TEFLoN uses paired-end illumina sequence data to discover and genotype transposable elements present in your samples.☆13Updated 4 years ago
- heterozygosity-based estimator of Rho - https://academic.oup.com/genetics/advance-article/doi/10.1093/genetics/iyac100/6623412☆10Updated 5 months ago
- Bayesian gene tree reconciliation and WGD inference using amalgamated likelihood estimation☆16Updated 9 months ago
- A genome-wide IM blockwise likelihood estimation toolkit☆17Updated last year
- Scripts for reformatting data. Mainly from tab separated to an esoteric program specific format☆13Updated 11 months ago
- Scripts for population genetics analysis☆20Updated 3 years ago
- ABLE - Approximate Blockwise Likelihood Estimation☆17Updated 7 years ago
- ☆15Updated 2 years ago
- Analyze and simulate Pool-Seq time series data☆17Updated 3 years ago
- ASTRAL for PaRalogs and Orthologs☆22Updated 3 years ago
- ksrates is a tool to position whole-genome duplications relative to speciation events using substitution-rate-adjusted mixed paralog-orth…☆20Updated 2 weeks ago
- predicting DFE and alpha from polymorphism data☆28Updated 7 years ago
- The MafFilter genome alignment processor☆19Updated last month
- Estimating repeat spectra and genome length from low-coverage genome skims☆12Updated 2 years ago
- ☆13Updated 4 years ago
- Site frequency spectrum estimation based on window expectation-maximisation algorithm☆14Updated 2 years ago
- Fast and flexible inference of the distribution of fitness effects (DFE), VCF-SFS parsing with ancestral allele and site-degeneracy annot…☆18Updated 2 weeks ago
- Distinguishing among modes of convergent adaptation using population genomic data: statistical inference method, extensions, and examples☆13Updated 6 years ago
- ☆21Updated last year
- The repository serves as a public and official hosting of the pSONIC program (Conover et al., 2021).☆21Updated 4 years ago
- Infer demographic history with the Moran model☆51Updated 7 months ago
- PREQUAL: a pre-alignment quality filter for comparative sequence analyses☆33Updated 3 years ago
- GitHub repository for GenErode, a Snakemake workflow for the analysis of whole-genome sequencing data from historical and modern samples …☆29Updated 3 weeks ago
- A tool to calculate ploidy levels from genotype likelihoods and coverage using Hidden Markov Models☆18Updated 3 years ago
- Ancestry_HMM-S is program designed to infer adaptive introgression from population genomic data☆19Updated 2 years ago
- ☆16Updated last year
- Sampling and inference of genealogies with recombination☆50Updated 7 months ago
- Script for removing or counting invariant sites for the RAxML ascertainment bias corrections☆16Updated last year
- Framework for analyzing low depth NGS data in heterogeneous populations using PCA.☆58Updated 7 months ago