condPlot(eisa)
condPlot()所属R语言包：eisa
Plot sample scores of a transcription module
图转录模块样品分数
译者：生物统计家园网 机器人LoveR
描述----------Description----------
Creates a barplot of sample (=condition) scores, for a given transcription module. See details below.
创建一个样本barplot（条件）的分数，对于一个给定的转录模块。详见下文。
用法----------Usage----------
condPlot (modules, number, eset, col = "white", all = TRUE, sep = NULL,
sepcol = "grey", val = TRUE, srt = 90, adj.above = c(0, 0.5),
adj.below = c(1, 0.5), plot.only = seq_len(ncol(eset)), ...)
参数----------Arguments----------
参数：modules
An ISAModules object.
ISAModules对象。
参数：number
An integer scalar, the module to plot.
整数的标量，图模块。
参数：eset
An ExpressionSet or ISAExpressionSet object. This is needed for calculating the scores of the samples that are not in the module, see the all argument. If an ExpressionSet object is supplied, then it is normalised by calling ISANormalize on it.
ExpressionSet或ISAExpressionSet对象。这是需要计算模块的样品得分，看到all论点。如果ExpressionSet对象提供的，那么它被调用ISANormalize标准化。
参数：col
Color of the bars, it it passed to barplot, so it can be any format barplot accepts. E.g. it can be a character vector with different colors for the different bars.
条形的颜色，它传递给barplot，因此它可以是任何格式的barplot接受。例如它可以用不同的颜色不同的条形的特征向量。
参数：all
Logical scalar, whether to plot all samples (if TRUE, the default), or just the ones that are included in the module.
逻辑标量，是否绘制所有样品（如果TRUE，默认），或只是在模块中包含的。
参数：sep
NULL or a numeric vector. If not NULL, then the bars are separated at the given positions with vertical lines. This is useful if you want to subdivide the samples into groups.
NULL或数字向量。如果没有NULL，然后条形在给定的位置与垂直线分开。这是有用的，如果你要细分成组样品。
参数：sepcol
The color of the separating lines (see the sep argument), if they are plotted.
分离线（见sep参数）的颜色，如果他们正在绘制。
参数：val
Logical scalar, whether to add labels with the actual score values.
逻辑标量，是否添加标签与实际得分值。
参数：srt
Numeric scalar, the rotation angle of the text labels, this is passed to the text function.
标数字，文本标签的旋转角度，这是传递给text功能。
参数：adj.above
Adjustment of the text labels that are above the bars. This is passed to text, see its manual for details.
调整文本标签，上面的条形。这是传递给text，看到它的详细信息手册。
参数：adj.below
Adjustments of the text labels that are below the bars. This is passed to text, see its manual for details.
调整下面的条形的文本标签。这是传递给text，看到它的详细信息手册。
参数：plot.only
Numeric vector, if supplied it is used to plot a subset of samples only. By default all samples are plotted.
数字向量，如果提供，它是用来绘制样本的一个子集。默认情况下，所有样品的绘制。
参数：...
Additional argument, to be passed to barplot.
额外的参数，要传递给barplot。
Details
详情----------Details----------
condPlot creates a barplot for the sample scores of an ISA transcription module. Each sample is represented as a bar.
condPlot创建了一个ISA转录模块的样品分数barplot。每个样本代表一间条形。
These plots are useful if you want to show that a given transcription module separates the samples into two (or more) groups. You can assign different colors to the samples, based on some external information, e.g. case and control samples can be colored differently.
这些图是有用的，如果你想显示一个特定的转录模块，分成两个组（或更多）的样品。您可以指定不同的颜色样本，基于一些外部信息，如病例和对照样品可以不同的颜色。
In most cases the scores are between minus one and one, but this is not necessarily true.
在大多数情况下，分数是负一和一间，但是这并不一定是真实的。
It is possible to assign scores to samples that are not part of the module, but this requires performing one (more precisely half) ISA iteration step. Currently the function always performs this extra step, even if the out-of-module samples are not plotted. Because the sample scores in a module are only approximately constant during ISA iteration, it might be possible that the plotted scores are slightly different than the ones stored in the modules variable.
它是可能的分配分数样品不属于模块的一部分，但是这需要执行一个（更精确的一半）ISA迭代步。目前，该函数总是执行这项额外的步骤，即使没有绘制出的模块样品。因为在一个模块的样品得分只有约不断的ISA迭代期间，有可能绘制的分数比modules变量存储的略有不同。
值----------Value----------
None.
没有。
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----------
ISA and ISAModules.
ISA和ISAModules。
举例----------Examples----------
data(ALLModulesSmall)
library(ALL)
data(ALL)
col <- ifelse(grepl("^B", ALL$BT), "darkolivegreen", "orange")
condPlot(ALLModulesSmall, 1, ALL, col=col)
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 17:12:32
