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. 2014 Jan 10;15(Suppl 1):S11. doi: 10.1186/1471-2105-15-S1-S11

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Copyright © 2014 González-Beltrán et al.; licensee BioMed Central Ltd.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

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ISA-guided domain specific workflows. A possible workflow for an ISA-Tab augmented experiment design and execution. ① The experiment is designed with e.g. the ISAcreator to define the samples. ② The experiment is performed and samples are collected. ③ The sample names are transferred to the machine, e.g. a mass spectrometer (MS), to run the assays. ④ Assays are performed. In the MS example, it often occurs that the MS instrument software allows to copy & paste into its sample table, and creates a report (including MS filenames) that can go into the ISA-Tab assay information. ⑤ Domain specific R packages, such as xcms for MS, process the raw data. ⑥ The Risa objects are augmented with the results of the assay and the completed ISA-Tab dataset can be written back to disk.