08.Tests(limma)
08.Tests()所属R语言包：limma
Hypothesis Testing for Linear Models
线性模型的假设检验
译者：生物统计家园网 机器人LoveR
描述----------Description----------
LIMMA provides a number of functions for multiple testing across both contrasts and genes. The starting point is an MArrayLM object, called fit say, resulting from fitting a linear model and running eBayes and, optionally, contrasts.fit. See 06.LinearModels or 07.SingleChannel for details.
LIMMA提供了一个跨越多个测试对比和基因功能。出发点是MArrayLM对象，被称为fit说，从拟合线性模型和运行eBayes“，选择性，contrasts.fit。见细节06.LinearModels或07.SingleChannel。
在基因和对比的多重测试----------Multiple testing across genes and contrasts----------
The key function is decideTests. This function writes an object of class TestResults, which is basically a matrix of -1, 0 or 1 elements, of the same dimension as fit$coefficients, indicating whether each coefficient is significantly different from zero. A number of different multiple testing strategies are provided. The function calls other functions classifyTestsF, classifyTestsP and classifyTestsT which implement particular strategies. The function FStat provides an alternative interface to classifyTestsF to extract only the overall moderated F-statistic.
主要功能是decideTests。这个函数写一个对象类TestResults，这基本上是一个矩阵-1，0或1元素为fit$coefficients同一维度，表明每个系数是否显着异于零。提供了一些不同的多个测试策略。函数调用等功能classifyTestsF，classifyTestsP和classifyTestsT实现特定的战略。功能FStat提供了另一种接口classifyTestsF只提取整体放缓的F-统计。
selectModel chooses between linear models for each probe using AIC or BIC criteria. This is an alternative to hypothesis testing and can choose between non-nested models.
selectModel之间进行选择，每个探针使用的AIC或者BIC标准的线性模型。这是一个假设检验的替代方法，可以选择非嵌套模型之间。
A number of other functions are provided to display the results of decideTests. The functions heatDiagram (or the older version heatdiagram displays the results in a heat-map style display. This allows visual comparison of the results across many different conditions in the linear model.
其他一些功能，提供，显示decideTests的结果。职能heatDiagram（或旧版本的heatdiagram热图样式显示在显示的结果。这使得视觉横跨许多不同条件下的线性模型的结果比较。
The functions vennCounts and vennDiagram provide Venn diagram style summaries of the results.
职能vennCounts和vennDiagram提供维恩图风格的结果摘要。
Summary and show method exists for objects of class TestResults.
总结和存在show方法类TestResults的对象。
The results from decideTests can also be included when the results of a linear model fit are written to a file using write.fit.
从decideTests的结果也可以包含线性模型的拟合结果被写入到一个文件，使用write.fit。
基因组测试----------Gene Set Tests----------
Competitive gene set testing for an individual gene set is provided by wilcoxGST or geneSetTest, which permute genes. The gene set can be displayed using barcodeplot.
竞争个人基因组的基因组测试提供wilcoxGST或geneSetTest，它置位基因。该基因组可以显示使用barcodeplot。
Self-contained gene set testing for an individual set is provided by roast, which uses rotation technology, analogous to permuting arrays.
自足的个人集基因组测试提供roast，它使用旋转技术，类似于置换阵列。
Gene set enrichment analysis for a large database of gene sets is provided by romer. topRomer is used to rank results from romer.
基因组富集的基因集的大型数据库分析提供romer的。 topRomer使用排名romer结果。
The functions alias2Symbol and alias2SymbolTable are provided to help match gene sets with microarray probes by way of official gene symbols.
职能alias2Symbol和alias2SymbolTable匹配基因组与芯片探针官方基因符号的方式提供帮助。
全球测试----------Global Tests----------
The function genas can test for associations between two contrasts in a linear model.
功能genas可以测试两个线性模型中的对比之间的关联。
Given a set of p-values, the function convest can be used to estimate the proportion of true null hypotheses.
鉴于一组的p值，函数convest可以用来估计真正的零假设的比例。
When evaluating test procedures with simulated or known results, the utility function auROC can be used to compute the area under the Receiver Operating Curve for the test results for a given probe.
与模拟或已知的结果进行评估时，测试程序，效用函数auROC可以用来计算对于一个给定的探针测试结果的受试者工作曲线下的面积。
作者（S）----------Author(s)----------
Gordon Smyth
转载请注明:出自 生物统计家园网(http://www.biostatistic.net)。
注：
注1：为了方便大家学习，本文档为生物统计家园网机器人LoveR翻译而成，仅供个人R语言学习参考使用，生物统计家园保留版权。
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发表于 2012-2-25 23:09:07
