Reference panel6 August 2026Mamana Mbiyavanga

Reference Panels on FedImpute

A high-level guide to the reference panels available on FedImpute, highlighting the latest H3Africa v7 panel.

FedImpute offers curated reference panels for genotype imputation across African and global ancestries. Our latest and largest panel is H3Africa v7 (4,283 samples · hg38) — start here for the broadest coverage.

All panels

H3Africa v6 (full) — 4,447 samples · hg38
H3Africa v6 African-only — 1,895 samples · hg38
H3Africa v7 (latest) — 4,283 samples · hg38
1KG NYGC 30x — 3,202 samples · hg38

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Reference panel

H3Africa v7

H3Africa v7 reference panel. 4,283 samples, 69.6M variants, hg38. The most recent H3Africa panel, adding the TrypanoGEN, CAfGEN and MalariaGEN cohorts to the v6 sources (KGP, HGDP, 54gene, GAPW, SAALS, AWI-Gen, H3A).

Reference panel

H3Africa v6 African-only

African-only subset of H3Africa v6. 1,895 samples from 48 African populations, 42.3M variants, hg38. Includes 54gene, GAPW, SAALS, AWI-Gen, H3A consortium cohorts.

Reference panel

H3Africa v6 (full)

Full H3Africa v6 reference panel. 4,447 samples across African and global populations, 58.7M variants, hg38. Includes KGP, HGDP, 54gene, GAPW, SAALS, AWI-Gen cohorts.

Reference panel

1KG NYGC 30x

1000 Genomes Project, NYGC 30x high-coverage re-sequencing. 3,202 samples, 31.3M variants, hg38. Good for non-African ancestry imputation. ALL-population allele frequencies only in this release; per-superpopulation breakdown coming later.