Each dataset consists of trios (658 from GMB and 608 from GHN) that were ascertained via proband children diagnosed with malaria in hospitals. The members of each trio were genotyped on the Illumina 650Y array, with the genotypes subjected to standard quality control procedures and phased by Beagle with trio information. MalariaGEN carried out the genotyping and data processing, then provided us with inferred haplotypes for the trio parents (1316 GMB individuals and 1216 GHN individuals) in NCBI Build 36 coordinates.