Bgen-reader’s documentation


October 22, 2019



Bgen⧉ is a file format for storing large genetic datasets. It supports both unphased genotypes and phased haplotype data with variable ploidy and number of alleles. It was designed to provide a compact data representation without sacrificing variant access performance.

This python package is a wrapper around the bgen library⧉, a low-memory footprint reader that efficiently reads bgen files. It fully supports the bgen format specifications: 1.2 and 1.3; as well as their optional compressed formats.

Comments and bugs

You can get the source and open issues on Github⧉.