Sweep Inference Framework (controlling for correlation)
☆28Jul 10, 2024Updated last year
Alternatives and similar repositories for SWIFr
Users that are interested in SWIFr are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- R code to compute the Singleton Density Score (SDS)☆31Sep 19, 2016Updated 9 years ago
- Utilities for analyzing next generation sequencing data☆17Sep 28, 2018Updated 7 years ago
- Repo to analyze population genetic data with many different methods☆15Oct 23, 2019Updated 6 years ago
- Estimation of per-individual inbreeding coefficients under a probabilistic framework☆22Aug 8, 2023Updated 2 years ago
- Minimal Assumption Genomic Inference of Coalescence☆14Aug 8, 2023Updated 2 years ago
- feature-based deep learning for the identification of selective sweeps☆59Feb 7, 2026Updated last month
- The Soft/Hard Inference through Classification tool for detecting hard and soft selective sweeps☆14Feb 2, 2021Updated 5 years ago
- Tools for inference of the DFE with dadi☆15Apr 16, 2021Updated 4 years ago
- Ancestry_HMM-S is program designed to infer adaptive introgression from population genomic data☆19Sep 25, 2023Updated 2 years ago
- Pinpoints the mutation favored by selection☆34Nov 2, 2021Updated 4 years ago
- ☆34Jan 14, 2026Updated 2 months ago
- ☆17Dec 2, 2015Updated 10 years ago
- ☆34Nov 11, 2025Updated 4 months ago
- predicting DFE and alpha from polymorphism data☆28Oct 4, 2018Updated 7 years ago
- Genome-wide scan for balancing selection using beta statistic☆32Apr 26, 2023Updated 2 years ago
- Efficient program for calculating Extended Haplotype Homozygosity (EHH) and Integrated Haplotype Score (iHS)☆45Oct 24, 2019Updated 6 years ago
- Coalescent Likelihood Under Effects of Selection - Inferring selection & allele frequency trajectories from nucleotide data☆26Jul 8, 2022Updated 3 years ago
- Extra add-ons that may be useful for people using SLiM, but that are not part of the SLiM project itself☆44Oct 30, 2025Updated 4 months ago
- Scripts for reformatting data. Mainly from tab separated to an esoteric program specific format☆13Updated this week
- A set of tools for modelling ancestry patterns along the genome.☆24Mar 13, 2026Updated last week
- SelectionHapStats is a repository of Python scripts written to identify natural selection events in the genome and R scripts written to v…☆28Aug 21, 2018Updated 7 years ago
- Python HyPhy: Facilitating HyPhy execution and parsing☆21Dec 7, 2021Updated 4 years ago
- R Functions to calculate power of GWAS studies for a single associated SNP, under various parameters. Suitable for classical (i.e. single…☆22Jul 19, 2018Updated 7 years ago
- FastSMC is a method to quickly and accurately estimate pairwise identical-by-descent (IBD) regions in the genome. FastSMC estimates the a…☆14Sep 2, 2021Updated 4 years ago
- Simulation of Epistasis Local adaptation, with Ancestry and Mate choice☆11Apr 22, 2023Updated 2 years ago
- Graph-aware Retrieval of Selective Sweeps☆22Sep 17, 2024Updated last year
- Unfazed by genomic variant phasing☆27May 26, 2024Updated last year
- Sampling and manipulating genome-wide ancestral recombination graphs (ARGs)☆14May 1, 2023Updated 2 years ago
- Estimation of per-individual inbreeding tracts under a probabilistic framework☆15Aug 11, 2023Updated 2 years ago
- Simulate ARGs and genomic sequence data using population genetic models☆210Mar 6, 2026Updated 2 weeks ago
- mixture classification, constraint optimization, outlier detection, population structure, admixture history, and selection detection.☆88Jun 14, 2021Updated 4 years ago
- RAiSD: software to detect positive selection based on multiple signatures of a selective sweep and SNP vectors☆40Nov 15, 2023Updated 2 years ago
- Tools and Utilities for msmc and msmc2☆50Jan 23, 2026Updated 2 months ago
- Selection outlier scan with population branch statistic☆15Feb 21, 2024Updated 2 years ago
- ☆15Nov 22, 2022Updated 3 years ago
- ☆13Dec 3, 2024Updated last year
- ALOFT, the Annotation Of Loss-of-Function Transcripts, provides extensive functional annotations to loss-of-function variants in the hum…☆19Nov 4, 2019Updated 6 years ago
- A series of scripts to automate sequence workflows☆19Updated this week
- Software for detecting introgression using supervised machine learning☆21Nov 21, 2022Updated 3 years ago