The SPrime program identifies variants that are introgressed from archaic populations.
☆32May 21, 2022Updated 4 years ago
Alternatives and similar repositories for sprime
Users that are interested in sprime are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A statistical framework for reference-free inference of archaic local ancestry☆15Nov 8, 2019Updated 6 years ago
- D Frequency Spectrum: Signatures of introgression across the allele frequency spectrum☆18Sep 19, 2020Updated 6 years ago
- ☆49Oct 17, 2025Updated 11 months ago
- Sampling and manipulating genome-wide ancestral recombination graphs (ARGs)☆14May 1, 2023Updated 3 years ago
- Fast inference of fine-scale recombination rates based on fused-LASSO☆63Feb 10, 2026Updated 7 months ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Infer demographic history with the Moran model☆52Jun 14, 2025Updated last year
- ☆35Nov 11, 2025Updated 10 months ago
- Bayesian reconstruction of ancient DNA fragments☆31Aug 6, 2024Updated 2 years ago
- Tools for identifying introgressed archaic sequence.☆12Jun 20, 2017Updated 9 years ago
- The hap-ibd program detects identity-by-descent segments in phased genotype data.☆56Jun 11, 2024Updated 2 years ago
- The GitHub for CLUES2, a method for inferring and evaluating evidence for selection.☆22Apr 9, 2025Updated last year
- mixture classification, constraint optimization, outlier detection, population structure, admixture history, and selection detection.☆90Jun 14, 2021Updated 5 years ago
- Module for analysing admixture graphs☆30Apr 30, 2018Updated 8 years ago
- A software package for local ancestry inference and haplotype phasing☆45Apr 20, 2023Updated 3 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- ☆20Oct 2, 2024Updated last year
- ☆20May 8, 2026Updated 4 months ago
- Infer the age of ancestral nodes in a tree sequence.☆27Jun 30, 2026Updated 2 months ago
- SMTpred is a program which combines SNP effects or individual scores from multiple traits according to their sample size, SNP-heritabilit…☆16May 25, 2017Updated 9 years ago
- Maximum a posteriori estimate of contamination for ancient samples☆25Sep 2, 2026Updated 2 weeks ago
- Presentations from the course☆40Aug 28, 2023Updated 3 years ago
- Phase reads, assemble haplotypes and detect SVs☆19Nov 11, 2020Updated 5 years ago
- Faster multispecies coalescent inference using multilocus data☆15Aug 13, 2023Updated 3 years ago
- G-PhoCS is a software package for inferring ancestral population sizes, population divergence times, and migration rates from individual …☆34Apr 27, 2021Updated 5 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Likelihood-based Selective Sweep Detection☆42Oct 12, 2023Updated 2 years ago
- IBD based kinship estimation☆16Mar 3, 2023Updated 3 years ago
- Infer a tree sequence from genetic variation data.☆65Sep 8, 2026Updated last week
- Identity-by-descent inference using the templated positional Burrows-Wheeler transform (TPBWT)☆47Feb 23, 2026Updated 6 months ago
- A set of tools for modelling ancestry patterns along the genome.☆24Aug 26, 2026Updated 3 weeks ago
- Simulation of Epistasis Local adaptation, with Ancestry and Mate choice☆11Apr 22, 2023Updated 3 years ago
- (Greetings_here_is_yet_another) Rate of Adaptive Protein Evolution Software☆10Jul 19, 2024Updated 2 years ago
- Drawing functions for Demes demographic models☆24Jul 20, 2026Updated 2 months ago
- Haplotype based scans for selection☆150Jun 5, 2026Updated 3 months ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- ☆13Apr 30, 2019Updated 7 years ago
- Collection of Python scripts for parsing/analyses of RAD-seq data☆25Jul 5, 2026Updated 2 months ago
- Combine structural variation outputs from long sequencing reads into a superior call set☆19Aug 6, 2025Updated last year
- ARG-based inference of selection using deep learning☆18Aug 31, 2023Updated 3 years ago
- LDBlockShow: a fast and convenient tool for visualizing linkage disequilibrium and haplotype blocks based on VCF files☆37Jul 5, 2025Updated last year
- A library of standard population genetic models☆144Updated this week
- Program to simulate admixture between multiple populations☆19Mar 8, 2023Updated 3 years ago