hyperG2annaffy(affycoretools)
hyperG2annaffy()所属R语言包：affycoretools
HTML tables from GOIDs
来自GOIDs的HTML表格
译者：生物统计家园网 机器人LoveR
描述----------Description----------
Output HTML tables containing the 'enriched' genes for each GO term resulting from a call to hyperGtable.
输出HTML表格包含每个GO调用hyperGtable从术语的“丰富”基因。
用法----------Usage----------
hyperG2annaffy(probids, lib, eset, fit = NULL, subset = NULL, comp = 1, type = "MF",
pvalue = 0.05, min.count = 10)
参数----------Arguments----------
参数：probids
A vector of Affymetrix probe IDs
Affymetrix公司的探针ID向量
参数：lib
An annotation package (e.g., hgu95av2)
一个注解包（例如，hgu95av2）
参数：eset
An ExpressionSet
ExpressionSet
参数：fit
An lmFit object. Only necessary if statistics are desired in the resulting table. Defaults to NULL.
lmFit对象。只有必要的，如果统计结果表所需。 NULL默认。
参数：subset
A numeric vector used to select GO terms to output (see description for more information). Defaults to NULL
一个数值向量用来选择输出GO术语（见更多信息的描述）。 NULL默认
参数：comp
Which contrast/parameter estimate should be used to extract the relevant statistics? Only used if fit is not NULL. See description for more information.
对比度/参数估计应该被用来提取有关的统计数字？仅用于fit如果非NULL。看到更多的信息描述。
参数：type
One of "MF", "CC", "BP", indicating molecular function, cellular component, or biological process, respectively.
“MF”，“抄送”，“BP”，表明分子功能，单元成分，或生物过程之一。
参数：pvalue
The significance level used to choose GO terms
用于选择GO术语的显着性水平
参数：min.count
The minimum number of a given GO term that must be on the chip in order to choose that GO term. This protects against very low p-values that result from the situation where there are very few genes with a given GO term on the chip, but one or two are found in the set of significant genes.
在一个给定的GO术语的最低人数，必须是为了在芯片上，选择好术语。这防止很低的p值，结果有极少数的基因与芯片上的GO术语，但一个或两个的重大基因组中发现的情况。
Details
详情----------Details----------
This function is used to create HTML tables based on the output of hyperGtable. The basic idea is as follows; as part of an analysis, say hyperGtable was used to create a table of 'enriched' GO terms. Unfortunately, the table only lists GO terms and the number of probesets that are annotated to those GO terms, and the client may be interested in knowing what probesets are enriched for each (or some) GO term.
这个函数是用来创建HTML表格上基于hyperGtable输出。其基本思路如下;作为分析的一部分，说hyperGtable被用来创建一个“丰富的GO术语表。不幸的是，表中只列出GO术语和注释的GO术语的probesets的数量，客户可能有兴趣知道什么probesets（或部分）转到术语丰富。
The default behaviour is to output an HTML table for each GO term, containing the probesets that are annotated at that term (and that are in the set of significant genes). If only some of the GO terms are of interest, one may use the subset argument to select only particular rows. In addition, if the relevant t-statistics, p-values and fold changes are of interest, one can also use the fit argument to point to an lmFit object that contains these data, as well as the comp argument to indicate which parameter or contrast to use. Note that the comp argument defaults to 1, so the first parameter or contrast will be extracted by default.
默认行为是每个GO术语输出一个HTML表格，即是在任期（的重大基因组）注明的probesets。 GO术语如果只有一些感兴趣的，可以使用subset参数，只选择特定的行。此外，如果有关t-统计量，p值和倍感兴趣的变化，也可以使用fit参数指向lmFit对象，它包含这些数据，以及的comp参数表明使用的参数或对比度。注意comp参数默认为1，所以第一个参数或对比将默认情况下，提取的。
值----------Value----------
This function is used only for the side effect of creating HTML tables.
此功能仅用于创建HTML表格的副作用。
作者（S）----------Author(s)----------
James W. MacDonald <jmacdon@med.umich.edu>
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 11:13:02
