CdfEnvAffy-class(altcdfenvs)
CdfEnvAffy-class()所属R语言包：altcdfenvs
Class "CdfEnvAffy"
类“CdfEnvAffy”
译者：生物统计家园网 机器人LoveR
描述----------Description----------
A class to hold the information necessary to handle the grouping of probes in set of probes, and to find XY coordinates
一个类来保存必要的信息处理探针在探针集的分组，并找到XY坐标
类的对象----------Objects from the Class----------
Objects can be created by calls of the form new("CdfEnvAffy", ...). Typically, there is an instance of the class for each type of chip (e.g. Hu6800, HG-U95A, etc...).
创建对象可以通过检测的形式new("CdfEnvAffy", ...)。通常情况下，每个芯片的类型（如Hu6800，HG-U95A，等等。）类的一个实例。
插槽----------Slots----------
envir: Object of class "environment". It has to be thought of as a hashtable: the keys are probe set identifiers,
envir类"environment"的对象。它被认为是一个Hashtable的键探针集标识符，
envName: Object of class "character". A name
envName类"character"的对象。一个名字
index2xy: Object of class "function". The function used to resolve index into xy coordinates. Unless you are an advanced user, you probably want to ignore this (and rely on the
index2xy类"function"的对象。用于解决xy坐标的指数函数。除非你是高级用户，你可能想忽略这个（靠上
xy2index: Object of class "function". The function used to resolve xy coordinates into index. Unless you are an advanced user, you probably want to ignore this (and rely on the
xy2index类"function"的对象。函数用于解决XY坐标索引。除非你是高级用户，你可能想忽略这个（靠上
nrow: Object of class "integer". The number of
nrow类"integer"的对象。的数量
ncol: Object of class "integer". The number of
ncol类"integer"的对象。的数量
probeTypes: Object of class "character". The different types of probes stored for each probe set. In the case of Affymetrix chips, the probes are typically perfect match
probeTypes类"character"的对象。存储不同类型的探针，每个探针集。在Affymetrix公司芯片的情况下，探针通常是完美的比赛
chipType: Object of class "character". The name of the chip type the instance is associated with. This is useful when one starts to create alternative mappings of the probes on a
chipType类"character"的对象。与芯片类型的实例的名称。这是有用的，当一个人开始上创建探针替代映射
方法----------Methods----------
[ signature(object = "CdfEnvAffy", i = "character", j = "missing", drop = "boolean"): subset a cdf, that is return a new cdf containing only a subset of the probe sets. The subset of probe sets to take is identified as a vector
[signature(object = "CdfEnvAffy", i = "character", j = "missing", drop = "boolean")：一个子集CDF，即返回一个新的CDF只包含一个探针集的子集。探针子集设置采取被确定为一个向量
coerce signature(object = "CdfEnvAffy", "environment"): coerce an
要挟signature(object = "CdfEnvAffy", "environment")：强制
coerce signature(object = "CdfEnvAffy", "Cdf"): coerce an
要挟signature(object = "CdfEnvAffy", "Cdf")：强制
geneNames signature(object="CdfEnvAffy"): Return the
geneNamessignature(object="CdfEnvAffy")：返回
index2xy signature(object = "CdfEnvAffy", i="integer"): convert
index2xysignature(object = "CdfEnvAffy", i="integer")：转换
indexProbes signature(object = "CdfEnvAffy", which = "character", probeSetNames = NULL): obtain the indexes for the probes associated wit the probe set name probeSetNames. When probeSetNames is set to NULL (default), the indexes are returned for the
indexProbessignature(object = "CdfEnvAffy", which = "character", probeSetNames = NULL)：获得相关的机智探针集的名称probeSetNames探针的指标。当probeSetNames设置为NULL（默认），索引返回
plot signature(x = "CdfEnvAffy", y = "missing"): Plot the chip. It mainly sets coordinates for further plotting (see
图signature(x = "CdfEnvAffy", y = "missing")：画出芯片。它主要设置坐标，进一步绘制（见
show signature(object = "CdfEnvAffy"): Print method.
显示signature(object = "CdfEnvAffy")：Print方法。
xy2index signature(object = "CdfEnvAffy", x="integer", y="integer"): convert XY
xy2indexsignature(object = "CdfEnvAffy", x="integer", y="integer")：转换的XY
toHypergraph signature(object = "CdfEnvAffy"): convert XY
toHypergraphsignature(object = "CdfEnvAffy")：转换的XY
作者（S）----------Author(s)----------
Laurent Gautier
参见----------See Also----------
indexProbes.CdfEnvAffy, plot.CdfEnvAffy
indexProbes.CdfEnvAffy，plot.CdfEnvAffy
举例----------Examples----------
## build an instance[＃建立一个实例。]
library(hgu95acdf)
cdfenv.hgu95a <- wrapCdfEnvAffy(hgu95acdf, 640, 640, "HG-U95A")
show(cdfenv.hgu95a)
## find the indexes for a probe set (pm only)[＃探针集的索引（下午一时）]
ip <- indexProbes(cdfenv.hgu95a, "pm", "1000_at")[[1]]
## get the XY coordinates for the probe set[＃得到的探针集的XY坐标]
xy <- index2xy(cdfenv.hgu95a, ip)
## plot the chip[＃绘制芯片]
plot(cdfenv.hgu95a)
## plot the coordinates[＃绘制的坐标]
plotLocation(xy)
## subset the environment[＃环境的子集]
cdfenv.hgu95a.mini <- cdfenv.hgu95a["1000_at"]
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。
|
发表于 2012-2-25 11:40:55
