Authors
Ryan Dale, Björn Grüning, Andreas Sjödin, Jillian Rowe, Brad A Chapman, Christopher H Tomkins-Tinch, Renan Valieris, Bérénice Batut, Adam Caprez, Thomas Cokelaer, Dilmurat Yusuf, Kyle A Beauchamp, Karel Brinda, Thomas Wollmann, Gildas Le Corguillé, Devon Ryan, Anthony Bretaudeau, Youri Hoogstrate, Brent S Pedersen, Simon van Heeringen, Martin Raden, Sebastian Luna-Valero, Nicola Soranzo, Matthias De Smet, Greg Von Kuster, Rory Kirchner, Lorena Pantano, Zachary Charlop-Powers, Kevin Thornton, Marcel Martin, Marius van den Beek, Daniel Maticzka, Milad Miladi, Sebastian Will, Kévin Gravouil, Per Unneberg, Christian Brueffer, Clemens Blank, Vitor C Piro, Joachim Wolff, Tiago Antao, Simon Gladman, Ilya Shlyakhter, Mattias de Hollander, Philip Mabon, Wei Shen, Jorrit Boekel, Manuel Holtgrewe, Dave Bouvier, Julian R de Ruiter, Jennifer Cabral, Saket Choudhary, Nicholas Harding, Robert Kleinkauf, Eric Enns, Florian Eggenhofer, Joseph Brown, Peter JA Cock, Henning Timm, Cristel Thomas, Xiao Ou Zhang, Matt Chambers, Nitesh Turaga, Enrico Seiler, Colin Brislawn, Elmar Pruesse, Jörg Fallmann, Jerome Kelleher, Hai Nguyen, Lance Parsons, Zhuoqing Fang, Endre Bakken Stovner, Nicholas Stoler, Simon Ye, Inken Wohlers, Rick Farouni, Mallory Freeberg, James E Johnson, Marcel Bargull, Philip Reiner Kensche, Timothy H Webster, John M Eppley, Christoph Stahl, Alexander S Rose, Alex Reynolds, Liang Bo Wang, Xavier Garnier, Simon Dirmeier, Michael Knudsen, James Taylor, Avi Srivastava, Vivek Rai, Rasmus Agren, Alexander Junge, Roman Valls Guimera, Aziz Khan, Sebastian Schmeier, Guowei He, Luca Pinello, Emil Hägglund, Alexander S Mikheyev, Jens Preussner, Nicholas R Waters, Wei Li, Jordi Capellades, Aroon T Chande, Yuri Pirola, Saskia Hiltemann, Matthew L Bendall, Sourav Singh, W Augustine Dunn, Alexandre Drouin, Tomás Di Domenico, Ino de Bruijn, David E Larson, Davide Chicco, Elena Grassi, Giorgio Gonnella, B Jaivarsan, Liya Wang, Franck Giacomoni, Erik Clarke, Daniel Blankenberg, Camy Tran, Rob Patro, Sacha Laurent, Matthew Gopez, Bengt Sennblad, Jasmijn A Baaijens, Philip Ewels, Patrick R Wright, Oana M Enache, Pierrick Roger, Will Dampier, David Koppstein, Upendra Kumar Devisetty, Tobias Rausch, Macintosh Cornwell, Adrian Emanuel Salatino, Julien Seiler, Matthieu Jung, Etienne Kornobis, Fabio Cumbo, Bianca Katharina Stöcker, Oleksandr Moskalenko, Daniel R Bogema, Matthew L Workentine, Stephen J Newhouse, Felipe da Veiga Leprevost, Kevin Arvai
Publication date
2018/7/1
Journal
Nature Methods
Volume
15
Issue
7
Pages
475-476
Description
To the Editor: Bioinformatics software comes in a variety of programming languages and requires diverse installation methods. This heterogeneity makes management of a software stack complicated, error-prone, and inordinately time-consuming. Whereas software deployment has traditionally been handled by administrators, ensuring the reproducibility of data analyses 1–3 requires that the researcher be able to maintain full control of the software environment, rapidly modify it without administrative privileges, and reproduce the same software stack on different machines.
The Conda package manager (https://conda. io) has become an increasingly popular means to overcome these challenges for all major operating systems. Conda normalizes software installations across language ecosystems by describing each software with a human readable ‘recipe’that defines meta-information and dependencies, as well as …
Scholar articles
B Grüning, R Dale, A Sjödin, BA Chapman, J Rowe… - Nature methods, 2018