Fast, accurate local ancestry inference with FLARE.
Am J Hum Genet
; 110(2): 326-335, 2023 02 02.
Article
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| MEDLINE
| ID: mdl-36610402
ABSTRACT
Local ancestry is the source ancestry at each point in the genome of an admixed individual. Inferred local ancestry is used for admixture mapping and population genetic analyses. We present FLARE (fast local ancestry estimation), a method for local ancestry inference. FLARE achieves high accuracy through the use of an extended Li and Stephens model, and it achieves exceptional computational performance through incorporation of computational techniques developed for genotype imputation. Memory requirements are reduced through on-the-fly compression of reference haplotypes and stored checkpoints. Computation time is reduced through the use of composite reference haplotypes. These techniques allow FLARE to scale to datasets with hundreds of thousands of sequenced individuals and to provide superior accuracy on large-scale data. FLARE is open source and available at https//github.com/browning-lab/flare.
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Bases de datos:
MEDLINE
Asunto principal:
Genoma Humano
/
Genética de Población
Límite:
Humans
Idioma:
En
Revista:
Am J Hum Genet
Año:
2023
Tipo del documento:
Article