plotChrMap(ChromHeatMap)
plotChrMap()所属R语言包：ChromHeatMap
Plot data as an annotated heat map along a chromosome
沿着染色体的注释热图的绘制数据
译者：生物统计家园网 机器人LoveR
描述----------Description----------
Given a ChrStrandData object (produced by the makeChrStrandData function), this function plots a heat map of its data values along a specified chromosome, optionally clustering samples and including an idiogram.
给予ChrStrandData对象（makeChrStrandData功能），此功能的图沿着指定染色体，可选聚类样本和包括idiogram的，其数据值的热图。
用法----------Usage----------
plotChrMap( data, chr, start = 1, end, subset = NULL,
cytoband, interval = ceiling((end-start)/500),
strands = c('forward', 'reverse'), ... )
参数----------Arguments----------
参数：data
A ChrStrandData object, output from the makeChrStrandData function.
一个ChrStrandData对象从makeChrStrandData函数的输出。
参数：chr
Chromosomal id, chromosome to plot 1:22,X,Y.
图1:22染色体，X，Y染色体ID，
参数：start
Optional start chromosome position from which to commence plotting.
可选的启动染色体上的位置，从开始策划。
参数：end
Optional end chromosome position.
可选的染色体末端的位置。
参数：subset
Optional numeric vector listing the samples from data to plot.
可选的数字矢量列出从data图的样本。
参数：cytoband
Optional cytological band to plot (e.g. "q23").
可选的单元学带图（如“Q23”）。
参数：interval
An optional interval size controlling the plot detail level.
一个可选的间隔大小，控制图的详细程度。
参数：strands
The chromosome strands to plot (a one- or two-element character vector, values "forward", "reverse", or "both").
染色体链图（一个或两个元素的特征向量，价值观“前进”，“反向”，或“两”）。
参数：...
Additional arguments are passed to the chrHeatMap function.
额外的参数传递给chrHeatMap功能。
Details
详情----------Details----------
This function is used to plot ChrStrandData objects (the output of the makeChrStrandData function) as heatmaps arranged along genome coordinates. The default heat map will plot the entire forward strand for the chosen chromosome at the top of the figure, with an idiogram and the reverse strand below it. To plot both strands overlaid, use the strands='both' argument. Probe or gene signals are averaged over a window size controlled by interval, such that the default length of each heat map segment is 1/500 the total heat map width. This can be varied as required to control the resolution of the plot. This function uses both the start and end chromosomal locations for each gene to plot heatmap positions, and as such will not work with older AnnotationDbi packages.
此功能用于沿基因组坐标排列的热图绘制ChrStrandData对象（makeChrStrandData函数的输出）。默认热图绘制的选择染色体的整个向前链，在图的顶部，它下面的一个idiogram和反向链。要绘制两条链覆盖，使用strands='both'参数。探针或基因信号控制窗口大小平均超过interval，这样，每个热图段的默认长度为1/500，总热图的宽度。这可以是多种多样的，需要控制的图的决议。使用此功能的开始和结束每一个基因的染色体位置绘制热图的位置，这样将无法与旧AnnotationDbi包。
See the related functions from this package for further plotting arguments which may be passed to this function. In particular, see the drawMapDendro documentation for arguments used to control sample clustering and plot axis font sizes, and chrHeatMap for arguments relating to the idiogram plot. Note that the plotting area layout() and par() values are not reset on exit, so that grabChrMapProbes can be subsequently used on the output.
从这个包中的相关职能，进一步绘制可能被传递给这个函数的参数。 ，特别是看到drawMapDendro文件用来控制样本聚类和图轴字体大小的参数，和chrHeatMap参数有关的idiogram图的。请注意，绘图区布局（）和（PAR）值不退出复位，使grabChrMapProbes可随后对输出使用。
Idiogram plotting is currently only supported for data mapping to human, mouse and rat genomes. In principle this is extendable to any organism for which the UCSC genome browser includes cytoband information. Please contact the maintainer of this package for help in such cases.
idiogram图目前只支持映射到人类，小鼠和大鼠的基因组数据。这是原则扩展到任何有机体UCSC基因组浏览器包括cytoband信息。请联系本在这种情况下，帮助包的维护者。
值----------Value----------
A ChrMapPlot object containing a list of probe/gene identifiers mapped to their corresponding display locations, for use with grabChrMapProbes.
一个ChrMapPlot对象包含一个列表映射到其相应的显示位置为使用grabChrMapProbes，探针/基因标识。
作者（S）----------Author(s)----------
Tim F Rayner
参考文献----------References----------
<h3>See Also</h3> <code>drawMapDendro</code>, <code>chrHeatMap</code>, <code>makeChrStrandData</code>, <code>grabChrMapProbes</code>
举例----------Examples----------
data('demo')
plotChrMap(chrdata, '22', cytoband='q11', labRow=ALLs.chr22$mol.biol,
cexCol=0.8, cexCyto=1.2, srtCyto=0)
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 15:04:42
