Deniz Fatma - The practice of reproducible research: case studies and lessons from the data-intensive sciences
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EDITED BY
Justin Kitzes, Daniel Turek, and Fatma Deniz
UNIVERSITY OF CALIFORNIA PRESS
University of California Press, one of the most distinguished university presses in the United States, enriches lives around the world by advancing scholarship in the humanities, social sciences, and natural sciences. Its activities are supported by the UC Press Foundation and by philanthropic contributions from individuals and institutions. For more information, visit www.ucpress.edu.
University of California Press
Oakland, California
2018 by The Regents of the University of California
Library of Congress Cataloging-in-Publication Data
Names: Kitzes, Justin, 1982 editor. | Turek, Daniel, 1980 editor. | Deniz, Fatma, 1983 editor.
Title: The practice of reproducible research : case studies and lessons from the data-intensive sciences / edited by Justin Kitzes, Daniel Turek, and Fatma Deniz.
Description: Oakland, California : University of California Press, [2018] | Includes bibliographical references and index.
Identifiers: LCCN 2017028437 (print) | LCCN 2017035680 (ebook) | ISBN 9780520967779 (epub) | ISBN 9780520294745 (cloth : alk. paper) | ISBN 9780520294752 (pbk. : alk. paper)
Subjects: LCSH : Reproducible research. | Electronic data processing. | ResearchStatistical methods. | StatisticsData processing.
Classification: LCC Q 180.55. S 7 (ebook) | LCC Q 180.55. S 7 P 73 2018 (print) | DDC 507.2/1dc23
LC record available at https://lccn.loc.gov/2017028437
Manufactured in the United States of America
25 24 23 22 21 20 19 18
10 9 8 7 6 5 4 3 2 1
Philip B. Stark
Justin Kitzes
Ariel Rokem, Ben Marwick, and Valentina Staneva
Justin Kitzes
Daniel Turek and Fatma Deniz
Kathryn Huff
Karthik Ram and Ben Marwick
Ariel Rokem and Fernando Chirigati
Anthony Arendt, Christian Kienholz, Christopher Larsen, Justin Rich, and Evan Burgess
Pablo Barber
Carl Boettiger
Garret Christensen
Jan Gukelberger and Matthias Troyer
Chris Hartgerink
Chris Holdgraf
David Holland and Denise Holland
Justin Kitzes
Andy Krause and Hossein Estiri
Jos Manuel Magallanes
Ben Marwick
Olivier Mesnard and Lorena A. Barba
K. Jarrod Millman, Kellie Ottoboni, Naomi A.P. Stark, and Philip B. Stark
K.A.S. Mislan
Kellie Ottoboni
Karthik Ram
Ariel Rokem
Rachel Slaybaugh
Daniela Ushizima
Zhao Zhang
Kyle Barbary
Fatma Deniz
Konrad Hinsen
Kathryn Huff
Randall J. LeVeque
Tara Madhyastha, Natalie Koh, and Mary K. Askren
Gilberto Pastorello
Russell Poldrack
Valentina Staneva
Daniel Turek
ANTHONY ARENDT
Applied Physics Laboratory and eScience Institute
University of Washington
Seattle, Washington, United States
MARY K. ASKREN
Integrated Brain Imaging Center, Department of Radiology
University of Washington
Seattle, Washington, United States
LORENA A. BARBA
Department of Mechanical and Aerospace Engineering
George Washington University
Washington, District of Columbia, United States
KYLE BARBARY
Berkeley Center for Cosmological Physics and Berkeley Institute for Data Science
University of California, Berkeley
Berkeley, California, United States
PABLO BARBER
School of International Relations
University of Southern California
Los Angeles, California, United States
CARL BOETTIGER
Department of Environmental Science, Policy and Management
University of California, Berkeley
Berkeley, California, United States
EVAN BURGESS
Geography Department
University of Utah
Salt Lake City, Utah, United States
FERNANDO CHIRIGATI
Tandon School of Engineering
New York University
New York, New York, United States
GARRET CHRISTENSEN
Berkeley Initiative for Transparency in the Social Sciences and Berkeley Institute for Data Science
University of California, Berkeley
Berkeley, California, United States
FATMA DENIZ
International Computer Science Institute, Helen Wills Neuroscience Institute, and Berkeley Institute for Data Science
University of California, Berkeley
Berkeley, California, United States
HOSSEIN ESTIRI
Harvard Medical School
Boston, Massachusetts, United States
JAN GUKELBERGER
Institute for Theoretical Physics
ETH Zurich
Zrich, Switzerland
CHRIS HARTGERINK
Department of Methodology and Statistics
Tilburg University
Tilburg, Netherlands
KONRAD HINSEN
Centre de Biophysique Molculaire
Centre national de la recherche scientifique
Orlans, France
CHRIS HOLDGRAF
Helen Wills Neuroscience Institute and Berkeley Institute for Data Science
University of California, Berkeley
Berkeley, California, United States
DAVID HOLLAND
Courant Institute of Mathematical Sciences
New York University
New York, New York, United States
DENISE HOLLAND
New York University
New York, New York, United States
KATHRYN HUFF
Nuclear Engineering Department and Berkeley Institute for Data Science
University of California, Berkeley
Berkeley, California, United States
CHRISTIAN KIENHOLZ
Natural Sciences Research Lab
University of Alaska Southeast
Juneau, Alaska, United States
JUSTIN KITZES
Department of Biological Sciences
University of Pittsburgh
Pittsburgh, Pennsylvania, United States
NATALIE KOH
Integrated Brain Imaging Center, Department of Radiology
University of Washington
Seattle, Washington, United States
ANDY KRAUSE
Melbourne School of Design
University of Melbourne
Melbourne, Victoria, Australia
CHRISTOPHER LARSEN
Geophysical Institute
University of Alaska Fairbanks
Fairbanks, Alaska, United States
RANDALL J. LEVEQUE
Department of Applied Mathematics
University of Washington
Seattle, Washington, United States
TARA MADHYASTHA
Integrated Brain Imaging Center, Department of Radiology
University of Washington
Seattle, Washington, United States
JOS MANUEL MAGALLANES
Evans School of Public Policy and Governance and eScience Institute
University of Washington
Seattle, Washington, United States;
Department of Social Sciences
Catholic University of Peru
Lima, Peru
BEN MARWICK
Department of Anthropology
University of Washington
Seattle, Washington, United States
OLIVIER MESNARD
Department of Mechanical and Aerospace Engineering
George Washington University
Washington, District of Columbia, United States
K. JARROD MILLMAN
Department of Statistics
University of California, Berkeley
Berkeley, California, United States
K.A.S. MISLAN
School of Oceanography and eScience Institute
University of Washington
Seattle, Washington, United States
KELLIE OTTOBONI
Department of Statistics
University of California, Berkeley
Berkeley, California, United States
GILBERTO PASTORELLO
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