ENGLISH

Genomics in the Cloud: Using Docker, GATK, and WDL in Terra

By Geraldine A. Van der Auwera; Brian D. O'Connor

Book information

Publisher
O'Reilly Media, Inc.
Year
2020
ISBN
9781491975145, 1491975148
Language
english
Format
EPUB
Filesize
28 MB (28847541 bytes)
Pages
496\0
Time added
2020-04-11 19:25:16

Description

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

Similar books

The arraignment and tryall with a declaration of the Ranters also, several sentences proceedings at the sessions in the Old-Baily, and Councel of War: their protestations and the hanging of one up by the thumbs; with divers penalties to be inflicted upon others. The dancing and revelling of Dr. Buckeridge and his wife, and other gent. dancing all in white, in Berkshire, and their Christmas carol. A dispute between a Ranter in Bridewel, and one that came to see him; with his creed and pater noster: and the names of the false gods they worship. As also, a list of many of the Ranters, from whence they are derived: and of many hundreds of them in England

2019 · EPUB

The discoverer; vvherein is set forth (to undeceive the nation) the reall plots and stratagems of Lievt. Col. John Lilburn, Mr. William Walwyn, Mr. Thomas Prince, Mr. Richard Overton, and that partie ... Namely, under the pretence and colour of libertie ... a most dangerous and destructive designe is carried on to deprive the nation of their religion, rights, liberties, proprieties, lawes, government, &c. and to bring a totall and universall ruine upon the land. And so much is here clearely proved. The first part

2019 · EPUB

An act to impower Sir John Molesworth: Baronet, and Joseph Moyle, Esquire, Two of the surviving Trustees, in an Indenture, dated the Twenty-Fifth Day of December One thousand Seven hundred and Forty-Three, to raise the several Sums in the said Indenture mentioned, or such of them as are still unsatisfied, and pay the same, as well as the rest of the personal Estate of Hugh Gregor, deceased, to such Person as Jane Gregor, an Infant, shall marry during her Infancy, with the Consent of the surviving Trustees, and of her Guardians

EPUB