ISAIterate(eisa)
ISAIterate()所属R语言包：eisa
Perform the Iterative Signature Algorithm
执行迭代签名算法
译者：生物统计家园网 机器人LoveR
描述----------Description----------
ISAIterate performs the ISA on an ExpressionSet object, from the given input seeds.
ISAIterate执行ISAExpressionSet对象，从给定的输入种子。
用法----------Usage----------
ISAIterate(data, feature.seeds, sample.seeds, thr.feat,
thr.samp = thr.feat, ...)
参数----------Arguments----------
参数：data
An ExpressionSet or ISAExpressionSet object. If an ExpressionSet object is supplied, then it is normalised by calling ISANormalize on it.
ExpressionSet或ISAExpressionSet对象。如果ExpressionSet对象提供的，那么它被调用ISANormalize标准化。
参数：feature.seeds
A matrix of feature seeds. The number of rows should match the number of features in the ExpressionSet, each column is a seed. Either this, or the sample.seeds argument must be given.
一个矩阵的特征种子。行数应在的ExpressionSet的功能相匹配的数量，每一列是一个种子。要么此，或sample.seeds参数必须考虑。
参数：sample.seeds
A matrix of sample seeds. The number of rows should match the number of samples in the ExpressionSet, each column in a seed. Either this, or the feature.seeds argument must be given.
基质的样品种子。行数应符合ExpressionSet，种子在每个列的样本数量。要么此，或feature.seeds参数必须考虑。
参数：thr.feat
Numeric scalar or vector giving the threshold parameter for the features. Higher values indicate a more stringent threshold and the result biclusters will contain less features on average. The threshold is measured by the number of standard deviations from the mean, over the values of the feature vector. If it is a vector, then it must contain an entry for each seed.
数字标量或矢量为特征的阈值参数。值越高，表明了更为严格的阈值的的结果biclusters将包含平均少的功能。人数超过平均值的标准偏差值的特征向量，阈值测定。如果它是一个向量，那么它必须包含每个种子的入口。
参数：thr.samp
Numeric scalar or vector giving the threshold parameter for the columns. The analogue of thr.feat.
数字标量或矢量阈值参数列。 thr.feat模拟。
参数：...
Additional arguments, these are passed to the isa.iterate function in the isa2 package. See also details below.
额外的参数，这些都传递给isa.iterateisa2包的功能。看到详情如下。
Details
详情----------Details----------
Performs the ISA from the given seeds. It is allowed to specify both type of seeds, then a half-iteration is performed on the sample.seeds and they are appended to the feature.seeds.
执行ISA从给定的种子。它允许指定两种类型的种子，然后进行半迭代sample.seeds他们被追加到feature.seeds。
The isa.iterate function of the isa2 package is called to do all the work, this has the following extra parameters: direction, convergence, cor.limit, eps, corx, oscillation, maxiter. Please see the isa.iterate manual for details about them.
被称为isa.iterateisa2包的功能来完成所有的工作，这有以下的额外参数：direction，convergence，cor.limit，eps，corx，oscillation，maxiter。关于他们的详细信息，请参阅isa.iterate手册。
值----------Value----------
An ISAModules object.
ISAModules对象。
作者（S）----------Author(s)----------
Gabor Csardi <a href="mailto:Gabor.Csardi@unil.ch">Gabor.Csardi@unil.ch</a>
参考文献----------References----------
analysis of large-scale gene expression data Phys Rev E Stat Nonlin Soft Matter Phys. 2003 Mar;67(3 Pt 1):031902. Epub 2003 Mar 11.
参见----------See Also----------
The ISA function for an easier interface with parameters.
ISA功能与参数的界面更容易。
举例----------Examples----------
library(ALL)
data(ALL)
# Only use a small sample, to make this example finish faster[只使用一个小样本，使这个例子完成得更快]
ALL.normed <- ISANormalize(ALL)[sample(1:nrow(ALL), 1000),]
# Generate seeds and do ISA[生成种子和办赛]
seeds <- generate.seeds(nrow(ALL.normed), count=100)
modules <- ISAIterate(ALL.normed, seeds, thr.feat=3, thr.samp=2)
modules
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。
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发表于 2012-2-25 17:14:04
