arrayQualityMetrics--a bioconductor package for quality assessment of microarray data.
arrayQualityMetrics--a bioconductor package for quality assessment of microarray data.
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DOI：
10.1093/bioinformatics/btn647
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发表时间：
2009-02-01
期刊：
影响因子：
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通讯作者：
Huber, Wolfgang
中科院分区：
文献类型：
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作者：
Kauffmann, Audrey;Gentleman, Robert;Huber, Wolfgang
摘要：数据质量的评估是微阵列分析中的一个主要问题。arrayQualityData是一个Bioconductor软件包，它提供一个报告，其中包含一个或两个彩色微阵列数据的诊断图。质量指标评估再现性，识别明显的离群值阵列和计算信噪比的措施。该工具可处理最新的微阵列技术，适合用于自动分析管道或自动生成报告，也可供个人使用。原则上，质量诊断仍然是一个依赖于上下文的判断，但我们的工具提供了强大的、自动化的、客观的和全面的工具，可以作为决策的基础。可用性：arrayQualityData是一个免费的开源软件包，在LGPL许可下，可以从Bioconductor项目www.bioconductor. org获得。可以在http://www.microarray-quality.org上找到由arrayQualityList生成的HTML报告的一些示例
SUMMARY: The assessment of data quality is a major concern in microarray analysis. arrayQualityMetrics is a Bioconductor package that provides a report with diagnostic plots for one or two colour microarray data. The quality metrics assess reproducibility, identify apparent outlier arrays and compute measures of signal-to-noise ratio. The tool handles most current microarray technologies and is amenable to use in automated analysis pipelines or for automatic report generation, as well as for use by individuals. The diagnosis of quality remains, in principle, a context-dependent judgement, but our tool provides powerful, automated, objective and comprehensive instruments on which to base a decision.AVAILABILITY: arrayQualityMetrics is a free and open source package, under LGPL license, available from the Bioconductor project at www.bioconductor.org. A users guide and examples are provided with the package. Some examples of HTML reports generated by arrayQualityMetrics can be found at http://www.microarray-quality.org