Bioconda: A sustainable and comprehensive software distribution for the life sciences Article Swipe

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Björn Grüning , Ryan Dale , Andreas Sjödin , Brad Chapman , Jillian Rowe , Christopher H. Tomkins-Tinch , Renan Valieris , Adam Caprez , Bérénice Batut , Mathias Haudgaard , Thomas Cokelaer , Kyle A. Beauchamp , Brent S. Pedersen , Youri Hoogstrate , Anthony Bretaudeau , Devon Ryan , Gildas Le Corguillé , Dilmurat Yusuf , Sebastián Luna-Valero , Rory Kirchner , Karel Břinda , Thomas Wollmann , Martin Raden , Simon J. van Heeringen , Nicola Soranzo , Lorena Pantano , Zachary Charlop–Powers , Per Unneberg , Matthias De Smet , Marcel Martin , Greg Von Kuster , Tiago Antão , Milad Miladi , Kevin Thornton , Christian Brueffer , Marius van den Beek , Daniel Maticzka , Clemens Blank , Sebastian Will , Kévin Gravouil , Joachim Wolff , Manuel Holtgrewe , Jörg Fallmann , Vitor C. Piro , Ilya Shlyakhter , Ayman Yousif , Philip Mabon , Xiao‐Ou Zhang , Wei Shen , Jennifer Cabral , Cristel G. Thomas , Eric Enns , Joseph Brown , Jorrit Boekel , Mattias de Hollander , Jerome Kelleher , Nitesh Turaga , Julian R. de Ruiter , Dave Bouvier , Simon Gladman , Saket Choudhary , Nicholas Harding , Florian Eggenhofer , Arne Kratz , Zhuoqing Fang , Robert Kleinkauf , Henning Timm , Peter Cock , Enrico Seiler , Colin Brislawn , Thi Hong Hai Nguyen , Endre Bakken Stovner , Philip Ewels , Matt Chambers , James E. Johnson , Emil Hägglund , Simon Ye , Roman Valls Guimerà , Elmar Pruesse , Walter Dunn , Lance Parsons , Rob Patro , David Koppstein , Elena Grassi , Inken Wohlers , Alex Reynolds , MacIntosh Cornwell , Nicholas Stoler , Daniel Blankenberg , Guowei He , Marcel Bargull , Alexander Junge , Rick Farouni , Mallory Freeberg , Sourav Singh , Daniel R. Bogema , Fabio Cumbo , Liang-Bo Wang , David E. Larson , Matthew L. Workentine ·

YOU? · · 2017 · Open Access · · DOI: https://doi.org/10.1101/207092 · OA: W2949155616

We present Bioconda ( https://bioconda.github.io ), a distribution of bioinformatics software for the lightweight, multiplatform and language-agnostic package manager Conda. Currently, Bioconda offers a collection of over 3000 software packages, which is continuously maintained, updated, and extended by a growing global community of more than 200 contributors. Bioconda improves analysis reproducibility by allowing users to define isolated environments with defined software versions, all of which are easily installed and managed without administrative privileges.