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Trends Plant Sci. 2012 Dec;17(12):688-92. doi: 10.1016/j.tplants.2012.07.003. Epub 2012 Aug 17.

What lies beneath: underlying assumptions in bioimage analysis.

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Centre for Plant Integrative Biology, University of Nottingham, LE12 5RD, UK.


The need for plant image analysis tools is established and has led to a steadily expanding literature and set of software tools. This is encouraging, but raises a question: how does a plant scientist with no detailed knowledge or experience of image analysis methods choose the right tool(s) for the task at hand, or satisfy themselves that a suggested approach is appropriate? We believe that too great an emphasis is currently being placed on low-level mechanisms and software environments. In this opinion article we propose that a renewed focus on the core theories and algorithms used, and in particular the assumptions upon which they rely, will better equip plant scientists to evaluate the available resources.

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