overlap(eisa)
overlap()所属R语言包：eisa
Overlap of ISA biclusters
重叠的ISA biclusters
译者：生物统计家园网 机器人LoveR
描述----------Description----------
Plots a network, where each node is a module and modules that overlap are closer to each other.
绘制一个网络，其中每个节点是一个模块和模块，重叠彼此更加接近。
用法----------Usage----------
overlap (modules, algorithm = c("mds", "fr", "drl"), edge.limit = 0.5)
overlapPlot (graph, xsize = 400, ysize = 400, vertex.size = 20,
vertex.size2 = 10, ...)
参数----------Arguments----------
参数：modules
An ISAModules object.
ISAModules对象。
参数：algorithm
The algorithm to use for placing the vertices, a character scalar. See details below.
该算法用于放置的顶点，一个字符标。详见下文。
参数：edge.limit
Numeric constant between zero and one, only edges between modules that have a Pearson correlation higher than edge.limit will be drawn.
0和1之间的数值不变，只有边缘模块之间有一个Pearson相关系数比edge.limit将绘制。
参数：graph
An igraph object, as returned by overlap.
igraph对象，返回overlap。
参数：xsize
The width of the plot in pixels, only used to calculate the return value, it does not influence the plot itself.
图的宽度，以像素为单位，只用来计算返回值，它不影响图本身。
参数：ysize
The height of the plot in pixels, only used to calculate the return value, it does not influence the plot itself.
的高度，以像素为单位的图，只用来计算返回值，它不影响图本身。
参数：vertex.size
The width of the vertices on the plot.
图顶点的宽度。
参数：vertex.size2
The height of the vertices on the plot.
在图上的顶点的高度。
参数：...
Additional arguments, these are passed to the plot.igraph function from the igraph package.
额外的参数，这些都传递给plot.igraphigraph包的功能。
Details
详情----------Details----------
An ISAModules object may potentially contain many modules that overlap. These functions visualize the overlapping relationships of a set of modules.
ISAModules对象可能会包含重叠的许多模块。这些功能的一组模块，可视化的重叠关系。
overlap creates an igraph graph with additional information on how to plot this graph in a way that nodes representing overlapping modules are close to each other.
overlap创建一个igraph图如何绘制此图的方式，代表重叠模块的节点彼此接近的其他信息。
overlapPlot takes such a graph and plots it.
overlapPlot需要这样的图和图。
overlap can use various algorithms, depending on the algorithm argument. If it is "mds", then multi-dimensional scaling is used, by calling the isaMDS function in the MASS package. If it is "fr", then the Fruchterman-Reingold algorithm is used, through the layout.fruchterman.reingold function of the igraph package. If it is "drl", then the DrL graph layout algorithm is used, see the layout.drl function in the igraph package.
overlap可以使用不同的算法，取决于algorithm论点的。如果它是mds“，然后多维缩放用于通过调用在isaMDS包MASS功能。如果它是fr，然后Fruchterman莱因戈尔德算法用于通过layout.fruchterman.reingoldigraph包的功能，。如果它是drl，然后使用DRL图布局算法，看到layout.drligraph包的功能。
值----------Value----------
overlap returns an igraph graph.
overlap返回IGRAPH的图形。
overlapPlot returns the coordinates of the vertices in a two-column matrix, invisibly.
overlapPlot返回一个两列的矩阵顶点的坐标，无形之中。
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.
举例----------Examples----------
data(ALLModulesSmall)
G <- overlap(ALLModulesSmall, algorithm="drl", edge.limit=0.3)
if (interactive()) {
overlapPlot(G)
}
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 17:15:27
