June 2015
Intermediate to advanced
306 pages
6h 50m
English
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Working with modern sequence formats
Here, we will work with FASTQ files, the standard format output by modern sequencers. You will learn how to work with quality scores per base and also consider the variations in output coming from different sequencing machines and databases. This is the first recipe that will use real data (big data) from the human 1000 genomes project. We will start with a brief description of the project.
Getting ready
The human 1000 genomes project aims to catalog world-wide 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 1000 ...
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O’Reilly covers everything we've got, with content to help us build a world-class technology community, upgrade the capabilities and competencies of our teams, and improve overall team performance as well as their engagement.Julian F.
I wanted to learn C and C++, but it didn't click for me until I picked up an O'Reilly book. When I went on the O’Reilly platform, I was astonished to find all the books there, plus live events and sandboxes so you could play around with the technology.Addison B.
I’ve been on the O’Reilly platform for more than eight years. I use a couple of learning platforms, but I'm on O'Reilly more than anybody else. When you're there, you start learning. I'm never disappointed.Amir M.
I'm always learning. So when I got on to O'Reilly, I was like a kid in a candy store. There are playlists. There are answers. There's on-demand training. It's worth its weight in gold, in terms of what it allows me to do.