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Bioinformatic pipelines in Python with leaf

OPEN BMC bioinformatics | 22 Jun 2013

F Napolitano, R Mariani-Costantini and R Tagliaferri
Abstract
An incremental, loosely planned development approach is often used in bioinformatic studies when dealing with custom data analysis in a rapidly changing environment. Unfortunately, the lack of a rigorous software structuring can undermine the maintainability, communicability and replicability of the process. To ameliorate this problem we propose the Leaf system, the aim of which is to seamlessly introduce the pipeline formality on top of a dynamical development process with minimum overhead for the programmer, thus providing a simple layer of software structuring.
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Concepts
Philosophy of science, Data, Pipeline transport, Computer software, Computer, Scientific method, Computer program
MeSH headings
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