goSlim-methods(GSEABase)
goSlim-methods()所属R语言包：GSEABase
Methods for Function goSlim in Package ‘GSEABase’
方法功能goSlim包GSEABase“
译者：生物统计家园网 机器人LoveR
描述----------Description----------
These methods summarize the gene ontology terms implied by the idSrc argument into the GO terms implied by the slimCollection argument. The summary takes identifiers in idSrc and determines all GO terms that apply to the identifiers. This full list of GO terms are then classified for membership in each term in the slimCollection.
这些方法总结基因本体idSrc参数到slimCollection论点隐含的GO术语暗示的条款。摘要idSrc的标识符，并确定所有GO术语适用于标识符。这GO术语的完整列表，然后归类为每个成员任期slimCollection。
The resulting object is a data frame containing the terms of slimCollection as row labels, counts and frequencies of identifiers calssified to each term, and an abbreviated term description.
所产生的对象是一个数据框包含slimCollection行标签，数量和频率calssified每学期标识符，和缩写术语描述。
An identifier in idSrc can expand to serveral GO terms, and the GO terms in slimCollection can imply an overlapping hierarchy of terms. Thus the resulting summary can easily contain more counts than there are identifiers in idSrc.
一个idSrc标识符可以扩大到serveral的GO术语，并在slimCollection GO术语可以暗示条款的重叠层次。因此产生的总结可以很容易地包含更多的数量，比有idSrc标识符。
用法----------Usage----------
goSlim(idSrc, slimCollection, ontology, ..., verbose=FALSE)
参数----------Arguments----------
参数：idSrc
An argument determining the source of GO terms to be mapped to slim terms. The source might be a GOCollection of terms, or another object (e.g., ExpressionSet) for which the method can extract GO terms.
参数确定源GO的条款将被映射到苗条的条款。源可能是一个GOCollection条款，或其他对象（例如，ExpressionSet）的方法可以提取GO术语。
参数：slimCollection
An argument containing the GO slim terms.
含有好苗条条款的参数。
参数：ontology
A character string nameing the ontology to be consulted when identifing slim term hierarchies. One of "MF" (molecular function), "BP" (biological process), "CC" (cellular compartment).
一个的字符串nameing本体要咨询当identifing苗条的术语层次。 “中频”（分子功能），“BP”（生物过程），“CC”（蜂窝室）。
参数：...
Additional arguments passed to specific emthods.
额外的参数传递特定emthods。
参数：verbose
Logical influencing whether messages (primarily missing GO terms arising during creation of the slim hierarchy) are reported.
逻辑影响是否报告了消息（主要是缺少苗条层次的创建过程中所产生的GO术语）。
方法----------Methods----------
ontology="character", ..., verbose=FALSE</dt> Classify idSrc GO terms into slimCollection categories. The hierarchy of terms included for each term is from the ontology (MF, BP, or CC) specified by ontology. verbose informs about, e.g., GO
本体=“字符”，...，详细为FALSE </ DT>分为idSrc类slimCollectionGO术语。包括每学期的层次是本体论从ontology指定（MF，BP或CC）。 verbose通知有关，例如，GO
ontology="character", ..., verbose=FALSE</dt> Determine the (unique) GO terms implied by feature names in idSrc (using the annotation map
本体=“字符”，...，VERBOSE = FALSE </ DT>确定（唯一）由idSrc（使用注解的图功能名称暗示的条款
举例----------Examples----------
myIds <- c("GO:0016564", "GO:0003677", "GO:0004345", "GO:0008265",
"GO:0003841", "GO:0030151", "GO:0006355", "GO:0009664",
"GO:0006412", "GO:0015979", "GO:0006457", "GO:0005618",
"GO:0005622", "GO:0005840", "GO:0015935", "GO:0000311")
myCollection <- GOCollection(myIds)
fl <- system.file("extdata", "goslim_plant.obo", package="GSEABase")
slim <- getOBOCollection(fl)
goSlim(myCollection, slim, "MF")
data(sample.ExpressionSet)
goSlim(sample.ExpressionSet, slim, "MF", evidenceCode="TAS")
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 21:17:18
