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. 2010 Jun 2;26(15):1819–1826. doi: 10.1093/bioinformatics/btq284

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© The Author(s) 2010. Published by Oxford University Press.

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.5), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Fig. 1. — Chart of data flow, major components and subsystems in the pipeline. Three subsystems are presented: genome assembly, feature prediction and functional annotation. Each subsystem consists of a top-level execution script managing the input, output, format conversion and combination of results for a number of components. A hierarchy of scripts and external programs then performs the tasks required to complete each stage. The legend for the flowchart indicates the identities of the distinct pipeline components: data, pipeline component, optional component, external component and external, optional component.