The Planemo toolkit for developing, deploying, and executing scientific data analyses in Galaxy and beyond

Simon Bray, John Chilton, Matthias Bernt, Nicola Soranzo, Marius van den Beek, Bérénice Batut, Helena Rasche, Martin Čech, Peter J.A. Cock, Björn Grüning, Anton Nekrutenko

Research output: Contribution to journalArticlepeer-review

1 Scopus citations

Abstract

There are thousands of well-maintained high-quality open-source software utilities for all aspects of scientific data analysis. For more than a decade, the Galaxy Project has been providing computational infrastructure and a unified user interface for these tools to make them accessible to a wide range of researchers. To streamline the process of integrating tools and constructing workflows as much as possible, we have developed Planemo, a software development kit for tool and workflow developers and Galaxy power users. Here we outline Planemo’s implementation and describe its broad range of functionality for designing, testing, and executing Galaxy tools, workflows, and training material. In addition, we discuss the philosophy underlying Galaxy tool and workflow development, and how Planemo encourages the use of development best practices, such as test-driven development, by its users, including those who are not professional software developers.

Original languageEnglish (US)
Pages (from-to)261-268
Number of pages8
JournalGenome research
Volume33
Issue number2
DOIs
StatePublished - 2023

All Science Journal Classification (ASJC) codes

  • Genetics
  • Genetics(clinical)

Cite this