R package: parallel computing toolset for relatedness and principal component analysis of SNP data (Development version only)
☆111Oct 21, 2025Updated 4 months ago
Alternatives and similar repositories for SNPRelate
Users that are interested in SNPRelate are comparing it to the libraries listed below
Sorting:
- ☆11Dec 15, 2025Updated 2 months ago
- A pipeline to generate a phylogenetic tree from huge SNP data☆94Dec 30, 2023Updated 2 years ago
- Structure variants calling and genotyping scripts for pan-Zea☆22Nov 17, 2022Updated 3 years ago
- ☆18Oct 4, 2023Updated 2 years ago
- Data management of large-scale whole-genome sequence variant calls using GDS files (Development version only)☆46Feb 26, 2026Updated last week
- An R package to analyse and visualise admixture proportions from STRUCTURE, fastSTRUCTURE, TESS, ADMIXTURE etc.☆151Dec 22, 2025Updated 2 months ago
- LDBlockShow: a fast and convenient tool for visualizing linkage disequilibrium and haplotype blocks based on VCF files☆206Jul 5, 2025Updated 8 months ago
- Eigen tools by Nick Patterson and Alkes Price lab☆199Nov 3, 2023Updated 2 years ago
- A pipeline that accepts a VCF file to run through Admixture☆63Jan 2, 2025Updated last year
- Bash scripts and data used in pantranscriptomic paper☆24Oct 21, 2022Updated 3 years ago
- Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis☆330Jul 7, 2023Updated 2 years ago
- Module for analysing admixture graphs☆28Apr 30, 2018Updated 7 years ago
- GWAS SNP Regulatory Analysis Tool☆17Mar 19, 2015Updated 10 years ago
- ☆24Jul 29, 2025Updated 7 months ago
- Code to compute the XP-CLR statistic to infer natural selection☆102Jun 13, 2022Updated 3 years ago
- A new simple and efficient software to PCA and Cluster For popolation VCF File☆80Jun 25, 2025Updated 8 months ago
- R Interface to CoreArray Genomic Data Structure (GDS) Files (Development version only)☆20Dec 17, 2025Updated 2 months ago
- Set of script for the paper on the cattle graph genome☆13Jan 10, 2023Updated 3 years ago
- Fast calculation of Patterson's D (ABBA-BABA) and the f4-ratio statistics across many populations/species☆185Dec 19, 2024Updated last year
- mixture classification, constraint optimization, outlier detection, population structure, admixture history, and selection detection.☆88Jun 14, 2021Updated 4 years ago
- Transposable element polymorphism identification☆34Jul 22, 2020Updated 5 years ago
- ☆31Nov 25, 2019Updated 6 years ago
- Construct and Analyze the North American Vitis pangenome☆29Aug 19, 2025Updated 6 months ago
- Linear-time, low-memory construction of variation graphs☆20Feb 3, 2020Updated 6 years ago
- Programs to analyse NGS data for population genetics purposes☆179Aug 27, 2024Updated last year
- Pipelines for analyzing genomic or transcriptomic data☆17Feb 29, 2024Updated 2 years ago
- ☆17Nov 26, 2023Updated 2 years ago
- MUM&Co uses Whole Genome Alignment information provided by MUMmer (only v4) to detect Structural Variation☆76Jan 12, 2026Updated last month
- A method for variant graph genotyping based on exact alignment of k-mers☆87Apr 1, 2019Updated 6 years ago
- Various Ideas for Confounder Adjustment in Regression☆24May 8, 2023Updated 2 years ago
- This repository contains relevant code and explanation for ”Leveraging a phased pangenome to design ideal haplotypes for hybrid potato br…☆35Oct 29, 2025Updated 4 months ago
- Scripts of population genomics analysis☆36May 8, 2018Updated 7 years ago
- Repository☆10Oct 23, 2024Updated last year
- SMC++ infers population history from whole-genome sequence data.☆173Jan 20, 2024Updated 2 years ago
- Snakemake-based workflow for detecting structural variants in genomic data☆82Feb 14, 2025Updated last year
- Pinpoints the mutation favored by selection☆34Nov 2, 2021Updated 4 years ago
- Repository for the 2017 Genome Biology publication, "The interplay of demography and selection during maize domestication and expansion"☆17Nov 24, 2020Updated 5 years ago
- Interactive assembly and analysis of RAD-seq data sets☆80Updated this week
- XL-mHG: A Semiparametric Test for Enrichment in Ranked Lists.☆13Jan 19, 2023Updated 3 years ago