Bioinformatics with Python Cookbook - Second Edition

Getting ready

The Human 1,000 Genomes Project aims to catalog worldwide human genetic variation and takes advantage of modern sequencing technology to do WGS. This project makes all data publicly available, which includes output from sequencers, sequence alignments, and SNP calls, among many other artifacts. The name "1,000 Genomes" is actually a misnomer, because it currently includes more than 2,500 samples. These samples are divided into 26 populations, spanning the whole planet. We will mostly use data from four populations: African Yorubans (YRI), Utah Residents with Northern and Western European Ancestry (CEU), Japanese in Tokyo (JPT), and Han Chinese in Beijing (CHB). The reason we chose these specific populations is because they were ...