Heng Li1. 1. Medical Population Genetics Program, Broad Institute, Cambridge, MA 02142, USA.
Abstract
UNLABELLED: BGT is a compact format, a fast command line tool and a simple web application for efficient and convenient query of whole-genome genotypes and frequencies across tens to hundreds of thousands of samples. On real data, it encodes the haplotypes of 32 488 samples across 39.2 million SNPs into a 7.4 GB database and decodes up to 420 million genotypes per CPU second. The high performance enables real-time responses to complex queries. AVAILABILITY AND IMPLEMENTATION: https://github.com/lh3/bgt.
UNLABELLED: BGT is a compact format, a fast command line tool and a simple web application for efficient and convenient query of whole-genome genotypes and frequencies across tens to hundreds of thousands of samples. On real data, it encodes the haplotypes of 32 488 samples across 39.2 million SNPs into a 7.4 GB database and decodes up to 420 million genotypes per CPU second. The high performance enables real-time responses to complex queries. AVAILABILITY AND IMPLEMENTATION: https://github.com/lh3/bgt.
Authors: Petr Danecek; Adam Auton; Goncalo Abecasis; Cornelis A Albers; Eric Banks; Mark A DePristo; Robert E Handsaker; Gerton Lunter; Gabor T Marth; Stephen T Sherry; Gilean McVean; Richard Durbin Journal: Bioinformatics Date: 2011-06-07 Impact factor: 6.937
Authors: Goncalo R Abecasis; Adam Auton; Lisa D Brooks; Mark A DePristo; Richard M Durbin; Robert E Handsaker; Hyun Min Kang; Gabor T Marth; Gil A McVean Journal: Nature Date: 2012-11-01 Impact factor: 49.962
Authors: Taedong Yun; Helen Li; Pi-Chuan Chang; Michael F Lin; Andrew Carroll; Cory Y McLean Journal: Bioinformatics Date: 2021-01-05 Impact factor: 6.937
Authors: Xiuwen Zheng; Stephanie M Gogarten; Michael Lawrence; Adrienne Stilp; Matthew P Conomos; Bruce S Weir; Cathy Laurie; David Levine Journal: Bioinformatics Date: 2017-08-01 Impact factor: 6.937
Authors: Kelvin V Kredens; Juliano V Martins; Osmar B Dordal; Mauri Ferrandin; Roberto H Herai; Edson E Scalabrin; Bráulio C Ávila Journal: PLoS One Date: 2020-05-26 Impact factor: 3.240
Authors: Jerome Kelleher; Mike Lin; C H Albach; Ewan Birney; Robert Davies; Marina Gourtovaia; David Glazer; Cristina Y Gonzalez; David K Jackson; Aaron Kemp; John Marshall; Andrew Nowak; Alexander Senf; Jaime M Tovar-Corona; Alexander Vikhorev; Thomas M Keane Journal: Bioinformatics Date: 2019-01-01 Impact factor: 6.937