findAttractors(attract)
findAttractors()所属R语言包：attract
Infers the set of cell-lineage specific gene expression modules using GSEAlm and KEGG.
推断出一套单元系特定基因的表达使用GSEAlm及KEGG模块。
译者：生物统计家园网 机器人LoveR
描述----------Description----------
The function infers a set of KEGG pathways that correspond to the cell-lineage specific gene expression modules, as determined using GSEA. These pathways represent those that show the greatest discrimination between the different cell types or tissues in the expression data set supplied.
函数推断一套KEGG通路对应的单元系特异性基因表达模块，使用GSEA。这些途径代表那些表达数据集提供不同类型的单元或组织之间的最大的歧视。
用法----------Usage----------
findAttractors(myEset, cellTypeTag, min.pwaysize = 5, annotation = "illuminaHumanv2BeadID.db", ...)
参数----------Arguments----------
参数：myEset
ExpressionSet object.
ExpressionSet对象。
参数：cellTypeTag
character string of the variable name which stores the cell-lineages or experimental groups of interest for the samples in the data set (this string should be one of the column names of pData(myEset)).
字符串的变量名，其中存储的数据集的样本（这个字符串应该是一个列名pData(myEset))单元谱系或实验组的利益。
参数：min.pwaysize
integer specifying the minimum size of the KEGG pathways to consider in the analysis.
integer指定KEGG通路分析考虑的最小尺寸。
参数：annotation
character string specifying the annotation package that corresponds to the chip platform the data was generated from.
字符串指定的注解包，对应的数据产生的芯片平台。
参数：...
additional arguments.
额外的参数。
Details
详情----------Details----------
This function subsets the expression data so that only those genes with annotations in KEGG are used for the downstream gene set enrichment analysis. This subset is stored in the eSet slot of the AttractoModuleSet output object. <br>
此功能亚群的表达数据，因此，只有那些，KEGG注释基因的下游基因组富集分析。这个子集存储在ESET的AttractoModuleSet输出对象插槽。参考
The GSEAlm algorithm finds the KEGG pathway modules which discriminate between the celltypes or experimental groups of interest. It also ranks the results of the GSEAlm step by significance of these pathway modules, as stored in rankedPathways. <br>
GSEAlm算法发现KEGG通路的歧视之间的利益celltypes或实验组的模块。它还通过这些途径模块的意义排名的GSEAlm一步的结果，存储在rankedPathways。参考
The output object of the findAttractors function also contains the incidence matrix that was built for the KEGG pathways, stored in the slot incidenceMatrix and the character string denoting which column of the sample data represents the cell type or experimental groups of interest, as stored in the slot cellTypeTag.
输出对象findAttractors功能也包含KEGG通路的关联矩阵，存储在插槽incidenceMatrix“字符的字符串，表示样本数据列代表的单元类型或实验利益集团，如存储在插槽cellTypeTag。
值----------Value----------
An AttractorModuleSet object.
AttractorModuleSet对象。
作者（S）----------Author(s)----------
Jessica Mar
参考文献----------References----------
Kanehisa, M. and S. Goto, KEGG: Kyoto Encyclopedia of Genes and Genomes. . Nucleic Acids Res., 2000. 28: p. 27-30. Mar, J., C. Wells, and J. Quackenbush, Identifying the Gene Expression Modules that Represent the Drivers of Kauffman's Attractor Landscape. to appear, 2010.
举例----------Examples----------
data(subset.loring.eset)
attractor.states <- findAttractors(subset.loring.eset, "celltype", annotation="illuminaHumanv1.db")
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。
注2：由于是机器人自动翻译，难免有不准确之处，使用时仔细对照中、英文内容进行反复理解，可以帮助R语言的学习。
注3：如遇到不准确之处，请在本贴的后面进行回帖，我们会逐渐进行修订。
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发表于 2012-2-25 12:26:58
