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Genomics in the Cloud : Using Docker, GATK, and WDL in Terra by Geraldine A. Van der Auwera and Brian D. O'Connor (2020, Trade Paperback)
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About this product
Product Identifiers
PublisherO'reilly Media, Incorporated
ISBN-101491975199
ISBN-139781491975190
eBay Product ID (ePID)237544876
Product Key Features
Number of Pages493 Pages
Publication NameGenomics in the Cloud : Using Docker, Gatk, and Wdl in Terra
LanguageEnglish
SubjectLife Sciences / Genetics & Genomics, Data Processing, Databases / Data Mining
Publication Year2020
TypeTextbook
AuthorGeraldine A. Van Der Auwera, Brian D. O'connor
Subject AreaComputers, Science
FormatTrade Paperback
Dimensions
Item Height1.2 in
Item Weight28.4 Oz
Item Length9.2 in
Item Width7 in
Additional Product Features
Intended AudienceScholarly & Professional
LCCN2021-275634
Dewey Edition23
IllustratedYes
Dewey Decimal572.8633028557
SynopsisGenomics researchers today are faced with an ever-increasing amount of data to analyze, and yet they have a difficult time leveraging modern frameworks and technologies (like Spark and cloud infrastructure) to efficiently and accurately analyze their data. This practical guide provides the guidance these researchers need. With this book, you'll learn how to combine algorithms designed for genomics with the leading tool for big data--Spark--and the ascendant paradigm of working in the cloud with Docker., Data in the genomics field is booming. In just a few years, organizations such as the National Institutes of Health (NIH) will host 50+ petabytes'??or over 50 million gigabytes'??of genomic data, and they'??re turning to cloud infrastructure to make that data available to the research community. How do you adapt analysis tools and protocols to access and analyze that volume of data in the cloud? With this practical book, researchers will learn how to work with genomics algorithms using open source tools including the Genome Analysis Toolkit (GATK), Docker, WDL, and Terra. Geraldine Van der Auwera, longtime custodian of the GATK user community, and Brian O'??Connor of the UC Santa Cruz Genomics Institute, guide you through the process. You'??ll learn by working with real data and genomics algorithms from the field. This book covers: Essential genomics and computing technology background Basic cloud computing operations Getting started with GATK, plus three major GATK Best Practices pipelines Automating analysis with scripted workflows using WDL and Cromwell Scaling up workflow execution in the cloud, including parallelization and cost optimization Interactive analysis in the cloud using Jupyter notebooks Secure collaboration and computational reproducibility using Terra, Data in the genomics field is booming. In just a few years, organizations such as the National Institutes of Health (NIH) will host 50+ petabytes' or over 50 million gigabytes' of genomic data, and they' re turning to cloud infrastructure to make that data available to the research community. How do you adapt analysis tools and protocols to access and analyze that volume of data in the cloud? With this practical book, researchers will learn how to work with genomics algorithms using open source tools including the Genome Analysis Toolkit (GATK), Docker, WDL, and Terra. Geraldine Van der Auwera, longtime custodian of the GATK user community, and Brian O' Connor of the UC Santa Cruz Genomics Institute, guide you through the process. You' ll learn by working with real data and genomics algorithms from the field. This book covers: Essential genomics and computing technology background Basic cloud computing operations Getting started with GATK, plus three major GATK Best Practices pipelines Automating analysis with scripted workflows using WDL and Cromwell Scaling up workflow execution in the cloud, including parallelization and cost optimization Interactive analysis in the cloud using Jupyter notebooks Secure collaboration and computational reproducibility using Terra
LC Classification NumberQH441.2
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