R语言 Starr包 normalize.Probes()函数中文帮助文档(中英文对照)

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normalize.Probes(Starr)
normalize.Probes()所属R语言包：Starr

                                         Normalization of probes
                                         标准化的探针

                                         译者：生物统计家园网 机器人LoveR

描述----------Description----------

Normalization of probe intensities with a given method.
标准化的探针强度与一个给定的方法。


用法----------Usage----------


normalize.Probes(eSet, method=NULL, ratio=FALSE, ip, control, description, fkt=median, featureData=FALSE, targets=NULL, arrays = NULL, ...)



参数----------Arguments----------

参数：eSet
An ExpressionSet, containing the logged raw intensities
一个ExpressionSet，包含记录的原始强度


参数：method
character string specifying the normalization method to be used. Choices are  "none", "scale", "quantile", "Aquantile", "Gquantile", "Rquantile", "Tquantile", "vsn", "rankpercentile", "loess", "substract".
字符串指定要使用的规范化方法。选择是“无”，“规模”，“分量”，“Aquantile”，“Gquantile”，“Rquantile”，“Tquantile”，“VSN”，“rankpercentile”，“黄土” ，“减去”。


参数：ratio
if TRUE, the ratios are calcualted.
如果为TRUE，比calcualted了。


参数：ip
a boolean vector, indicating which sample are IP experiments
一个布尔向量，表明样品的IP实验


参数：control
a boolean vector, indicating which sample are CONTROL experiments
一个布尔向量，表明该样本是对照实验


参数：description
description of the normalized data
规范化数据的说明


参数：fkt
function to chose for averaging over replicates
平均超过复制功能选择


参数：featureData
should the featureData of eSet be passed to the new ExpressionSet?
应通过ESET featureData新ExpressionSet？


参数：targets
vector, factor or matrix of length twice the number of arrays, used to indicate target groups if method="Tquantile"
向量长度的因素或矩阵阵列数的两倍，用来表示如果方法=“Tquantile的目标群体”


参数：arrays
Subset of experiments (colnames in ExpressionSet) in the ExpressionSet, that are supposed to be normalized seperately.
的子集实验（在ExpressionSet colnames），在ExpressionSet，都应该被归分开。


参数：...
arguments, that should be passed to the normalization methods.
参数，应传递到标准化的方法。


Details

详情----------Details----------

The procedure calls different functions from this package or from affy and limma, depending on the method.
程序调用不同的功能，从这个包，或从affy和limma，取决于方法。




none Calls normalizeWithinArrays with method="none"  from package limma.
没有呼唤normalizeWithinArraysmethod="none"包limma。




scale Calls normalizeWithinArrays with
规模呼唤normalizeWithinArrays




quantile Calls normalizeBetweenArrays with
normalizeBetweenArrays位数检测




Gquantile Calls normalizeBetweenArrays with
normalizeBetweenArraysgquantile呼吁




Rquantile Calls normalizeBetweenArrays with
normalizeBetweenArraysrquantile呼吁




Tquantile Calls normalizeBetweenArrays with
normalizeBetweenArraystquantile呼吁




Rquantile Calls normalizeBetweenArrays with
normalizeBetweenArraysrquantile呼吁




vsn Calls normalizeBetweenArrays with
VSN呼唤normalizeBetweenArrays




loess Calls normalize.loess from package affy.
的黄土呼吁normalize.loess包affy。




rankpercentile Calls rankPercentile.normalize from this package.
rankpercentile呼吁rankPercentile.normalize从这个包。




substract Calls substract from this package.
减去呼吁substract从这个包。


作者（S）----------Author(s)----------


Benedikt Zacher <a href="mailto:zacher@lmb.uni-muenchen.de">zacher@lmb.uni-muenchen.de</a>



参见----------See Also----------

normalizeBetweenArrays, normalize.loess
normalizeBetweenArrays，normalize.loess


举例----------Examples----------


##[＃]
# dataPath &lt;- system.file("extdata", package="Starr")[< - 。系统数据通路（的“extdata”，包=“斯塔尔”）]
# bpmapChr1 &lt;- readBpmap(file.path(dataPath, "Scerevisiae_tlg_chr1.bpmap"))[bpmapChr1 < -  readBpmap（file.path（数据通路，“Scerevisiae_tlg_chr1.bpmap”））]

# cels &lt;- c(file.path(dataPath,"Rpb3_IP_chr1.cel"), file.path(dataPath,"wt_IP_chr1.cel"), [CELS < -  C（file.path（数据通路，“Rpb3_IP_chr1.cel”），file.path（数据通路，“wt_IP_chr1.cel”），]
#         file.path(dataPath,"Rpb3_IP2_chr1.cel"))[file.path（数据通路，“Rpb3_IP2_chr1.cel”））]
# names &lt;- c("rpb3_1", "wt_1","rpb3_2")[名< - （“rpb3_1”，“wt_1”，“rpb3_2”）]
# type &lt;- c("IP", "CONTROL", "IP")[类型< -  C（“知识产权”，“控制”，“知识产权”）]
# rpb3Chr1 &lt;- readCelFile(bpmapChr1, cels, names, type, featureData=TRUE, log.it=TRUE)[rpb3Chr1 < -  readCelFile（bpmapChr1，CELS，名称，类型，featureData = TRUE，log.it = TRUE）]

# rpb3_rankpercentile &lt;- normalize.Probes(rpb3Chr1, method="rankpercentile")[rpb3_rankpercentile < -  normalize.Probes（rpb3Chr1，方法=“rankpercentile”）]

转载请注明:出自 生物统计家园网(http://www.biostatistic.net)。


注：
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