bgen

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AI-sandbox / snputils

Python toolkit for fast genotype I/O, ancestry analysis, population-genetics statistics, genotype QC, GWAS, and visualization

python bioinformatics gwas genomics genetics popgen plink vcf ancestry population-genetics bcf bgen pgen genotype-qc

Updated Sep 10, 2026
Python

roshchupkin / pybgen

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Light and fast pure python parser for bgen format (v.1.1; 1.2; 1.3)

python parser bioinformatics gwas ukbiobank bgen ukbb

Updated Jan 17, 2018
Python

gbadedata / imputation-calibration-benchmark

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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.

python benchmark bioinformatics genomics reproducible-research vcf calibration population-genetics statistical-genetics beagle bgen health-equity genotype-imputation plink2 1000-genomes

Updated Sep 5, 2026
Python

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