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What is HapMap format?

April 26, 2017format hapmap

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What is HapMap format?

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This refers to the genotype data dump (NOT the frequency or LD data dump!) that you can obtain from the HapMap website. In this file format, the columns correspond to the HapMap samples (depending on the population sample selected), and every line corresponds to a SNP. If you upload a HapMap file, it will be automatically converted and phased, recognizing the familial (trio) relationships in YRI and CEU samples. It is preferable to use the chromosomal landmarks method (which instead of uploading HapMap data directly, especially if you have a large genomic region or multiple regions. We aim to host the most current version of the HapMap installed locally.