Datasets for: Genomic analysis of a pre-elimination Malaysian Plasmodium vivax population reveals selective pressures and changing transmission dynamics (Auburn et al., 2018)

Through an analysis of parasite samples collected at different locations in Asia, Africa, America and Oceania, we identified single nucleotide polymorphisms (SNPs). This download includes genotyping data for 259 samples contributed to the MalariaGEN Plasmodium vivax Genome Variation project under MalariaGEN studies 1154 and 1156 that were genotyped at these SNPs. Genotyping data is currently released for all identified biallelic single nucleotide polymorphisms (SNPs) that had a VQSLOD score of at least 3, and have <= 5% missing calls in the 259 samples. These data are released open access. This data was created as an ad-hoc build and hasn't been quality assessed by the MalariaGEN team. Publications using these data should acknowledge and cite the source of the data using the following format: "This publication uses data from samples described in Auburn et al., Nature Communications, 2018; DOI: https://doi.org/10.1038/s41467-018-04965-4, processed as part of the MalariaGEN P. vivax Genome Variation project, as described in Pearson et al., Nature Genetics, 2016 (doi: 10.1038/ng.3599)." Data files: Pv_Nature_communications_2018_VQSLOD3.vcf.gz: contains details of 527,107 SNPs in 259 samples Pv_Nature_communications_2018_VQSLOD3.vcf.gz.tbi: index file for Pv_Nature_communications_2018_VQSLOD3.vcf.gz Pv_Nature_communications_2018_samples.xlsx: sample metadata README 20180524.txt: further information on the project and data files in this record