Bioconda: A sustainable and comprehensive software distribution for the life sciences
Authors: Grüning Björn , Dale Ryan , Sjödin Andreas , Chapman Brad A. , Rowe Jillian , Tomkins-Tinch Christopher H. , Valieris Renan , Caprez Adam , Batut Bérénice , Haudgaard Mathias , Cokelaer Thomas , Beauchamp Kyle A. , Pedersen Brent S , Hoogstrate Youri , Bretaudeau Anthony , Ryan Devon , Corguillé Gildas Le , Yusuf Dilmurat , Luna-Valero Sebastian , Kirchner Rory , Brinda Karel , Wollmann Thomas , Raden Martin , Heeringen Simon J. van , Soranzo Nicola , Pantano Lorena , Charlop-Powers Zachary , Unneberg Per , Smet Matthias De , Martin Marcel , Kuster Greg Von , Antao Tiago , Miladi Milad , Thornton Kevin , Brueffer Christian , Beek Marius van den , Maticzka Daniel , Blank Clemens , Will Sebastian , Gravouil K´evin , Wolff Joachim , Holtgrewe Manuel , Fallmann Jörg , Piro Vitor C. , Shlyakhter Ilya , Yousif Ayman , Mabon Philip , Zhang Xiao-Ou , Shen Wei , Cabral Jennifer , Thomas Cristel , Enns Eric , Brown Joseph , Boekel Jorrit , Hollander Mattias de , Kelleher Jerome , Turaga Nitesh , Ruiter Julian R. de , Bouvier Dave , Gladman Simon , Choudhary Saket , Harding Nicholas , Eggenhofer Florian , Kratz Arne , Fang Zhuoqing , Kleinkauf Robert , Timm Henning , Cock Peter J. A. , Seiler Enrico , Brislawn Colin , Nguyen Hai , Stovner Endre Bakken , Ewels Philip , Chambers Matt , Johnson James E. , Hägglund Emil , Ye Simon , Guimera Roman Valls , Pruesse Elmar , Dunn W. Augustine , Parsons Lance , Patro Rob , Koppstein David , Grassi Elena , Wohlers Inken , Reynolds Alex , Cornwell MacIntosh , Stoler Nicholas , Blankenberg Daniel , He Guowei , Bargull Marcel , Junge Alexander , Farouni Rick , Freeberg Mallory , Singh Sourav , Bogema Daniel R. , Cumbo Fabio , Wang Liang-Bo , Larson David E , Workentine Matthew L. , Devisetty Upendra Kumar , Laurent Sacha , Roger Pierrick , Garnier Xavier , Agren Rasmus , Khan Aziz , Eppley John M , Li Wei , Stöcker Bianca Katharina , Rausch Tobias , Taylor James , Wright Patrick R. , Taranto Adam P. , Chicco Davide , Sennblad Bengt , Baaijens Jasmijn A. , Gopez Matthew , Abdennur Nezar , Milne Iain , Preussner Jens , Pinello Luca , Srivastava Avi , Chande Aroon T. , Kensche Philip Reiner , Pirola Yuri , Knudsen Michael , Bruijn Ino de , Blin Kai , Gonnella Giorgio , Enache Oana M. , Rai Vivek , Waters Nicholas R. , Hiltemann Saskia , Bendall Matthew L. , Stahl Christoph , Miles Alistair , Boursin Yannick , Perez-Riverol Yasset , Schmeier Sebastian , Clarke Erik , Arvai Kevin , Jung Matthieu , Domenico Tom´as Di , Seiler Julien , Rasche Eric , Kornobis Etienne , Beisser Daniela , Rahmann Sven , Mikheyev Alexander S , Tran Camy , Capellades Jordi , Schröder Christopher , Salatino Adrian Emanuel , Dirmeier Simon , Webster Timothy H. , Moskalenko Oleksandr , Stephen Gordon , Köster Johannes 
Published: October 2017

AbstractWe 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.