The GitHub for CLUES2, a method for inferring and evaluating evidence for selection.
☆18Apr 9, 2025Updated last year
Alternatives and similar repositories for CLUES2
Users that are interested in CLUES2 are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Coalescent Likelihood Under Effects of Selection - Inferring selection & allele frequency trajectories from nucleotide data☆26Jul 8, 2022Updated 3 years ago
- Statistical inference of recent positive selection using IBD segments☆14Updated this week
- Genotyping lots of samples with big pangenomes☆11Oct 30, 2025Updated 5 months ago
- lace up GFA files using panSN path name sub-ranges to coordinate the lacing☆14Jul 30, 2025Updated 8 months ago
- Fast and flexible inference of the distribution of fitness effects (DFE), VCF-SFS parsing with ancestral allele and site-degeneracy annot…☆18Mar 21, 2026Updated 3 weeks ago
- DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- HaploSweep is a method for detecting and categorizing soft and hard selective sweeps based on haplotype structure.☆11Sep 24, 2024Updated last year
- AncestralPaths is a local ancestry painting technique based on genealogies produced by RELATE. The method aims to assign 'path' ancestrie…☆11Jun 29, 2023Updated 2 years ago
- (Greetings_here_is_yet_another) Rate of Adaptive Protein Evolution Software☆10Jul 19, 2024Updated last year
- ☆21Jan 11, 2024Updated 2 years ago
- Infer the age of ancestral nodes in a tree sequence.☆25Apr 4, 2026Updated last week
- Software for estimating genome-wide genealogies for thousands of samples☆42Oct 17, 2025Updated 5 months ago
- Estimation of population genetic parameters using deep learning☆29Apr 2, 2025Updated last year
- The flare program performs local ancestry inference☆46Nov 4, 2025Updated 5 months ago
- Workflow for processing Illumina sequencing runs for ancient human DNA☆26Oct 29, 2020Updated 5 years ago
- DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- cobraa (coalescent based reconstruction of ancient admixture): a hidden Markov model to infer ghost admixture using just a diploid sequen…☆23Jun 17, 2025Updated 9 months ago
- ☆34Jan 14, 2026Updated 2 months ago
- Infering ancestral synteny with hierarchical orthologous groups☆38Oct 17, 2025Updated 5 months ago
- Sampling and inference of genealogies with recombination☆55Mar 20, 2026Updated 3 weeks ago
- Pangenome Mutation-Annotated Networks☆40Updated this week
- Time-stratified f-statistics☆15Aug 1, 2025Updated 8 months ago
- ☆19May 10, 2023Updated 2 years ago
- Haplotype and population structure inference using neural networks.☆29Dec 5, 2024Updated last year
- ☆13Mar 7, 2021Updated 5 years ago
- Wordpress hosting with auto-scaling on Cloudways • AdFully Managed hosting built for WordPress-powered businesses that need reliable, auto-scalable hosting. Cloudways SafeUpdates now available.
- A tool for estimating time-dependent migration rates based on cross-/within-population coalescent rates from MSMC☆16Apr 6, 2025Updated last year
- An R package to estimate the timing of selection for a beneficial allele.☆14Dec 2, 2021Updated 4 years ago
- machine learning applications for dadi☆17Jan 23, 2025Updated last year
- PanEffect is a JavaScript framework to explore variant effects across a pangenome. The tool has two views that allows a user to (1) expl…☆13Jan 30, 2024Updated 2 years ago
- Infer demographic history with the Moran model☆51Jun 14, 2025Updated 9 months ago
- A statistical framework for reference-free inference of archaic local ancestry☆16Nov 8, 2019Updated 6 years ago
- The SPrime program identifies variants that are introgressed from archaic populations.☆27May 21, 2022Updated 3 years ago
- Automated and Distributed Population Genetic Model Inference from Allele Frequency Spectra☆18Mar 31, 2026Updated last week
- Sampling and manipulating genome-wide ancestral recombination graphs (ARGs)☆14May 1, 2023Updated 2 years ago
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- Genealogical Estimation of Variant Age (GEVA)☆32Sep 30, 2021Updated 4 years ago
- Fast, whole-genome simulation of the discrete time Wright-Fisher process☆15Apr 6, 2020Updated 6 years ago
- A reimplementation of a classical PSMC method in python for educational purposes☆17Jul 22, 2024Updated last year
- Graph-aware Retrieval of Selective Sweeps☆22Sep 17, 2024Updated last year
- Source code for the program MavericK, described fully at www.bobverity.com/maverick☆12Jun 21, 2018Updated 7 years ago
- your friendly pangenome graph genotyper☆10Feb 6, 2023Updated 3 years ago
- Observed substitution counts of SARS-CoV-2 compared to those expected under the mutation rates☆21Nov 8, 2024Updated last year