Journal Article

Community-driven development for computational biology at Sprints, Hackathons and Codefests

Chapman, Brad A, Bonnal, Raoul JP, Afgan, Enis, Prins, Pjotr, Kaján, László, Quinn, Jacqueline, Seemann, Torsten, Möller, Steffen, Chilton, John, Tille, Andreas, Steinbiss, Sascha, Gumbel, Markus, Banck, Michael, Guimera, Roman Valls, Travis, Anthony J, Harris, Nomi, Soiland-Reyes, Stian, Kibukawa, Eri, Cock, Peter JA, Kalaš, Matúš, Holland, Richard, Spooner, William, Strozzi, Francesco, Booth, Timothy, Sallou, Olivier, Powel, David R, Sloggett, Clare, Katayama, Toshiaki

2014

Overview

Background Computational biology comprises a wide range of technologies and approaches. Multiple technologies can be combined to create more powerful workflows if the individuals contributing the data or providing tools for its interpretation can find mutual understanding and consensus. Much conversation and joint investigation are required in order to identify and implement the best approaches. Traditionally, scientific conferences feature talks presenting novel technologies or insights, followed up by informal discussions during coffee breaks. In multi-institution collaborations, in order to reach agreement on implementation details or to transfer deeper insights in a technology and practical skills, a representative of one group typically visits the other. However, this does not scale well when the number of technologies or research groups is large. Conferences have responded to this issue by introducing Birds-of-a-Feather (BoF) sessions, which offer an opportunity for individuals with common interests to intensify their interaction. However, parallel BoF sessions often make it hard for participants to join multiple BoFs and find common ground between the different technologies, and BoFs are generally too short to allow time for participants to program together. Results This report summarises our experience with computational biology Codefests, Hackathons and Sprints, which are interactive developer meetings. They are structured to reduce the limitations of traditional scientific meetings described above by strengthening the interaction among peers and letting the participants determine the schedule and topics. These meetings are commonly run as loosely scheduled \"unconferences\" (self-organized identification of participants and topics for meetings) over at least two days, with early introductory talks to welcome and organize contributors, followed by intensive collaborative coding sessions. We summarise some prominent achievements of those meetings and describe differences in how these are organised, how their audience is addressed, and their outreach to their respective communities. Conclusions Hackathons, Codefests and Sprints share a stimulating atmosphere that encourages participants to jointly brainstorm and tackle problems of shared interest in a self-driven proactive environment, as well as providing an opportunity for new participants to get involved in collaborative projects.

• Publisher: BioMed Central,Springer Nature B.V
• Subject: Algorithms / BASIC BIOLOGICAL SCIENCES / Biochemistry & Molecular Biology / Bioinformatics / Biology / Biomedical and Life Sciences / Biotechnology & Applied Microbiology / Communication / Computation / Computational Biology / Computational Biology/Bioinformatics / Computer Appl. in Life Sciences / Conferences / Cooperative Behavior / Internet / KNOWLEDGE MANAGEMENT AND PRESERVATION / Life Sciences / Mathematical & Computational Biology / MATHEMATICS AND COMPUTING / Meetings / Microarrays / Mobile communication systems / Networks / Semantics / Software