plink2
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An integrated pipeline for analysis and visualization of Population Structure and Relatedness based on genome-wide genetic variant data
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Apr 6, 2023 - R
LocusZoom in Jupyter notebooks
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Jul 20, 2023 - TypeScript
Interactive visualization of population genetics data for ~10,000 modern and ancient individuals.
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Jul 22, 2026 - Python
gwas workflow from raw intensity data to in-silico functional mapping
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Jun 23, 2025 - Shell
End-to-end GWAS pipeline for type 2 diabetes: PLINK quality control, PCA population structure correction, and Firth logistic regression run as SLURM jobs on HPC. 1.05M variants across 402 samples, 41 genome-wide significant hits, lambda_GC 0.986.
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Aug 26, 2026 - Shell
A graphical user interface for PLINK 2.0, built with NiceGUI — open-source genetics toolkit by Carigenetics.
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Aug 20, 2025 - Python
Very basic Snakemake workflow
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Sep 9, 2020 - Python
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May 2, 2025 - Jupyter Notebook
Evidence-graded, ancestry-calibrated polygenic risk score pipeline: a WGS BAM/VCF in, a graded, absolute-risk, consensus-verified multi-trait PGS report out.
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Jul 24, 2026 - Python
Population structure and genetic differentiation analysis of African populations using 1000 Genomes Phase 3 chr22 data — PCA, ADMIXTURE, Fst, and CYP2D6/CYP2D7 pharmacogenomic relevance.
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Jun 24, 2026 - R
Dual-condition genotype imputation benchmark on 1000 Genomes chr20: is Beagle's DR2 calibrated, and does calibration survive an ancestry-mismatched reference panel? plink2 + Beagle 5.5 with abstention analysis, bootstrap CIs, and exact QC accounting.
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Sep 5, 2026 - Python
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May 27, 2025 - JavaScript
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