On Best Practices in the Development of Bioinformatics Software

Published in Frontiers in Genetics, 2014

Recommended citation: Leprevost Fda V, Barbosa VC, Francisco EL, Perez-Riverol Y, Carvalho PC. On best practices in the development of bioinformatics software. Front Genet. 2014;5:199. Published 2014 Jul 2. doi:10.3389/fgene.2014.00199 https://pubmed.ncbi.nlm.nih.gov/25071829/

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Bioinformatics is one of the major areas of study in modern biology. Medium- and large-scale quantitative biology studies have created a demand for professionals with proficiency in multiple disciplines, including computer science and statistical inference besides biology. Bioinformatics has now become a cornerstone in biology, and yet the formal training of new professionals (Perez-Riverol et al., 2013; Via et al., 2013), the availability of good services for data deposition, and the development of new standards and software coding rules (Sandve et al., 2013; Seemann, 2013) are still major concerns. Good programming practices range from documentation and code readability through design patterns and testing (Via et al., 2013; Wilson et al., 2014). Here, we highlight some points for best practices and raise important issues to be discussed by the community.