aggregatePvals(HTSanalyzeR)
aggregatePvals()所属R语言包：HTSanalyzeR
Aggregate p-values from gene set over-representation tests.
从基因的聚合p值设置过的代表性测试。
译者：生物统计家园网 机器人LoveR
描述----------Description----------
This function takes as input a matrix of p-values for example obtained from a GSEA on multiple phenotypes, with a row for each gene set and a column for each phenotype and aggregates the p-values by row (i.e. one aggregated p-value for each gene set) according to Fisher or Stouffer's methods.
此功能作为输入的P-值的矩阵从GSEA多个表型获得一个例子，每个基因组和一列，为每个表型和p值总量的逐行（即一个聚合的P-值每个基因组）根据费舍尔或斯托弗的方法。
用法----------Usage----------
aggregatePvals(pvalMatrix, method="fishers", pAdjustMethod="BH",
order=TRUE)
参数----------Arguments----------
参数：pvalMatrix
a numeric matrix of p-values, with rows named according to the gene set (rows correspond to gene sets, and columns to multiple p-values to be aggregated for that gene set)
p值的数值矩阵，根据基因组（行对应的基因套，列多个聚合，基因组的p值）命名的行
参数：method
a single character value of "stouffers" or "fishers"
一个的“stouffers”或“渔民”的单一的字符值
参数：pAdjustMethod
a single character value specifying the p-value adjustment method to be used (see 'p.adjust' for details)
一个单一的字符值，指定要使用（详见“p.adjust”P-值调整方法）
参数：order
a single logical value: TRUE or FALSE. If it is TRUE, the results table will be ordered according to the aggregated p-values.
一个单一的逻辑值：TRUE或FALSE。如果这是真的，结果表将被勒令根据汇总的p值。
Details
详情----------Details----------
The Fisher method combines the p-values into an aggregated chi-squared statistic equal to -2*sum(log(Pk)) were we have k=1,..,K pvalues independently distributed as uniform on the unit interval under the null hypothesis. The resulting p-values are calculated by comparing this chi-squared statistic to a chi-squared distribution with 2K degrees of freedom. The Stouffer method computes a z-statistics assuming that the sum of the quantiles (from a standard normal distribution) corresponding to the p-values are distributed as N(0,K).
费希尔方法结合成一条聚合的卡方统计等于-2 *总和（log（PK））P-值，我们有k = 1，...，钾pvalues独立单位区间上的均匀分布下的空假说。导致的p值计算，通过比较此卡方统计与自由的2K度的卡方分布。该的斯托弗方法计算的Z-统计假设，分布为N（0，K），p值对应的位数（从标准正态分布）的总和。
值----------Value----------
a matrix with a row for each gene set and two columns: "Aggregated.p.value" and "Adjusted.aggregated.p.value"
与每个基因组的行和两列的矩阵：的“Aggregated.p.value”和“Adjusted.aggregated.p.value”
作者（S）----------Author(s)----------
Jack Rose and Camille Terfve
举例----------Examples----------
p1 <- runif(100, min=0, max=1)
p2 <- runif(100, min=0, max=1)
names(p1) <- as.character(sample(x=seq(from=1, to=100, by=1), size=100,
replace=FALSE))
pmatrix <- cbind(p1, p2)
rownames(pmatrix) <- names(p1)
aggP <- aggregatePvals(pvalMatrix=pmatrix, method="stouffers")
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 21:52:56
