Publications

Bernd Flemisch, Sibylle Hermann, Melanie Herschel, Dirk Pflüger, Jürgen Pleiss, Jan Range, Sarbani Roy, Makoto Takamoto, and Benjamin Uekermann. Research Data Management in Simulation Science: Infrastructure, Tools, and Applications. Datenbank-Spektrum, Jun 4, 2024. [PUMA: myown forschungsdaten publist simtech software] URL

Bernd Flemisch, Sibylle Hermann, Christian Holm, Miriam Mehl, Guido Reina, Benjamin Uekermann, David Boehringer, Thomas Ertl, Jean-Noël Grad, Dorothea Iglezakis, Alexander Jaust, Timo Koch, Anett Seeland, Rudolf Weeber, Florian Weik, and Kilian Weishaupt. Umgang mit Forschungssoftware an der Universität Stuttgart. Universität Stuttgart, 2020. [PUMA: myown forschungsdaten publist simtech software] URL

Titus Winters, Tom Manshreck, and Wright Hyrum. Software engineering at Google: lessons learned from programming over time. O'Reilly, Beijing, 2020. [PUMA: documentation software diss]

Carlos Martinez-Ortiz, Daniel S. Katz, Anna-Lena Lamprecht, Michelle Barker, Axel Loewe, Anne Fouilloux, Jane Wyngaard, Daniel Garijo, Javier Moldon, Leyla Jael Castro, Daniel Wheeler, Joost Rutger Demian Albers, and Allen Lee. FAIR4RS: Adoption support. Zenodo, February 2022. [PUMA: forschungsdaten software diss fair] URL

Paula Andrea Martinez, Michelle Barker, Alexander Struck, Leyla Jael Castro, Christopher Erdmann, Daniel Garijo, Sandra Gesing, Axel Loewe, and Javier Moldón. A Survey on Adoption Guidelines for the FAIR4RS Principles. Zenodo, March 2022. [PUMA: forschungsdaten software diss fair] URL

Paula Andrea Martinez, Alexander Struck, Leyla Jael Castro, Daniel Garijo, Axel Loewe, Sandra Gesing, Michelle Barker, Neil Chue Hong, Christopher Erdmann, Carlos Martinez-Ortiz, and Susanna-Assunta Sansone. A Survey on Adoption Guidelines for the FAIR4RS Principles: Dataset. Zenodo, March 2022. [PUMA: forschungsdaten software diss fair] URL

Neil P. Chue Hong, Daniel S. Katz, Michelle Barker, Anna-Lena Lamprecht, Carlos Martinez, Fotis E. Psomopoulos, Jen Harrow, Leyla Jael Castro, Morane Gruenpeter, Paula Andrea Martinez, and Tom Honeyman. FAIR Principles for Research Software (FAIR4RS Principles). Research Data Alliance, 2021. [PUMA: forschungsdaten software diss fair] URL

James Howison, and James D. Herbsleb. Scientific software production. Proceedings of the ACM 2011 conference on Computer supported cooperative work - CSCW \textquotesingle11, ACM Press, 2011. [PUMA: forschungsdaten development software success diss] URL

Matthew J. Turk. How to Scale a Code in the Human Dimension. CoRR, (abs/1301.7064)2013. [PUMA: forschungsdaten development software success diss] URL

Mehran Karimzadeh, and Michael M Hoffman. Top considerations for creating bioinformatics software documentation. Briefings in Bioinformatics, (19)4:693-699, January 2017. [PUMA: forschungsdaten software recommendation diss] URL

Rafael C. Jiménez, Mateusz Kuzak, Monther Alhamdoosh, Michelle Barker, Bérénice Batut, Mikael Borg, Salvador Capella-Gutierrez, Neil Chue Hong, Martin Cook, Manuel Corpas, Madison Flannery, Leyla Garcia, Josep Ll. Gelp\'ı, Simon Gladman, Carole Goble, Montserrat González Ferreiro, Alejandra Gonzalez-Beltran, Philippa C. Griffin, Björn Grüning, Jonas Hagberg, Petr Holub, Rob Hooft, Jon Ison, Daniel S. Katz, Brane Leskosek, Federico López Gómez, Luis J. Oliveira, David Mellor, Rowland Mosbergen, Nicola Mulder, Yasset Perez-Riverol, Robert Pergl, Horst Pichler, Bernard Pope, Ferran Sanz, Maria V. Schneider, Victoria Stodden, Radosław Suchecki, Radka Svobodová Vareková, Harry-Anton Talvik, Ilian Todorov, Andrew Treloar, Sonika Tyagi, Maarten van Gompel, Daniel Vaughan, Allegra Via, Xiaochuan Wang, Nathan S. Watson-Haigh, and Steve Crouch. Four simple recommendations to encourage best practices in research software. F1000Research, (6):876, F1000 Research Ltd, June 2017. [PUMA: forschungsdaten documentation software] URL

Janna Hastings, Kenneth Haug, and Christoph Steinbeck. Ten recommendations for software engineering in research. GIGASCIENCE, (3)BIOMED CENTRAL LTD, 236 GRAYS INN RD, FLOOR 6, LONDON WC1X 8HL, ENGLAND, December 2014. [PUMA: forschungsdaten documentation software recommendation diss]

Morgan Taschuk, and Greg Wilson. Ten simple rules for making research software more robust. PLOS Computational Biology, (13)4:1-10, Public Library of Science, April 2017. [PUMA: forschungsdaten documentation software recommendation diss] URL

Mateusz Kuzak, Jen Harrow, Rafael C. Jimenez, Paula Andrea Martinez, Fotis E. Psomopoulos, Radka Svobodová Vařeková, and Allegra Via. Lesson Development for Open Source Software Best Practices Adoption. 2018 IEEE 14th International Conference on e-Science (e-Science), 19-20, October 2018. [PUMA: forschungsdaten software opensource diss] URL

Maria J. Cruz, Shalini Kurapati, and Yasemin Turkyilmaz-van der Velden. The Role of Data Stewardship in Software Sustainability and Reproducibility. 2018 IEEE 14th International Conference on e-Science (e-Science), 1-8, October 2018. [PUMA: forschungsdaten software steward] URL

Mehran Karimzadeh, and Michael M. Hoffman. Top considerations for creating bioinformatics software documentation. BRIEFINGS IN BIOINFORMATICS, (19)4:693-699, OXFORD UNIV PRESS, GREAT CLARENDON ST, OXFORD OX2 6DP, ENGLAND, July 2018. [PUMA: forschungsdaten documentation software]

Yasmin AlNoamany, and John A. Borghi. Towards computational reproducibility: researcher perspectives on the use and sharing of software. PeerJ Computer Science, (4):e163, PeerJ, September 2018. [PUMA: forschungsdaten software survey] URL

Pierre Alliez, Roberto Di Cosmo, Benjamin Guedj, Alain Girault, Mohand-Saïd Hacid, Arnaud Legrand, and Nicolas Rougier. Attributing and Referencing (Research) Software: Best Practices and Outlook From Inria. Computing in Science Engineering, (22)1:39-52, January 2020. [PUMA: forschungsdaten susi software diss zitieren] URL

Francesca Pianosi, Fanny Sarrazin, and Thorsten Wagener. How successfully is open-source research software adopted? Results and implications of surveying the users of a sensitivity analysis toolbox. Environmental Modelling & Software, (124):104579, Elsevier BV, February 2020. [PUMA: forschungsdaten software survey SAFE] URL

Pedro Magaña, Juan Del-Rosal-Salido, Manuel Cobos, Andrea Lira-Loarca, and Miguel Ortega-Sánchez. Approaching Software Engineering for Marine Sciences: A Single Development Process for Multiple End-User Applications. Journal of Marine Science and Engineering, (8)5:350, MDPI AG, May 2020. [PUMA: forschungsdaten software diss rules] URL