HULK(beadarray)
HULK()所属R语言包：beadarray
HULK - Bead Array Normalization by NEighbourhood Residuals
绿巨人 - 由邻里残值珠阵列标准化
译者：生物统计家园网 机器人LoveR
描述----------Description----------
Normalizes an probe intensities by calculating a weighted average residual based on the residuals of the surrounding probes.
标准化探针强度计算根据周围的探针残差加权平均剩余。
用法----------Usage----------
HULK(BLData, array = 1, neighbours = NULL, invasions = 20, useLocs = TRUE, weightName = "wts", transFun = logGreenChannelTransform, outlierFun = illuminaOutlierMethod)
参数----------Arguments----------
参数：BLData
An object of class beadLevelData-class
一个对象的类beadLevelData-class
参数：array
integer specifying which section/array to process
整数，指定处理该条/阵列
参数：neighbours
A Neighbours matrix. Optional - if left NULL, it will be computed.
一个邻居的矩阵。可选 - 如果保留为空，它会被计算。
参数：invasions
Integer - Number of invasions used when identifying neighbouring beads.
整数 - 确定邻近珠时使用的入侵。
参数：useLocs
If information from an associated .locs file is to be used. If available using a .locs file can improve both the speed and accuracy of determining the network of neighbouring beads.
如果从关联的。LOCS文件的信息是被使用。如果可以使用。LOCS文件可以提高双方的确定邻国珠网络的速度和准确性。
参数：weightName
Column name where bead weights are to be taken from.
列名是要采取从珠重量。
参数：transFun
Transformation function.
转换功能。
参数：outlierFun
Name or definition for the function to be used to calculated outliers.
名称或定义函数被用来计算离群。
Details
详情----------Details----------
HULK is a method of intensity normalization based upon the BASH framework. Firstly For each bead a local neighbourhood of beads is determined, using the same process as the other BASH functions.
Hulk是根据bash的框架的强度标准化的方法。首先，对于每个珠子的珠子当地居委会是确定的，其他的bash功能使用相同的过程。
For each bead a weighted average residual is calculated. The average residual is calculated as the sum of the residuals for each bead in the neighbourhood, divided by 1 plus the number of invasions it took to reach that bead. This calculation is made by a call to HULKResids.
对于每个珠子计算的加权平均剩余。平均剩余计算每个珠子在附近残差总和除以1，加上入侵了达到珠。调用HULKResids由这个计算。
The average residuals are then subtracted from each bead and a vector of the resulting corrected intensities object is returned. These corrected intensities can be saved in the original beadLevelData object using insertBeadData
平均残差，然后减去每个珠子，造成矫正对象强度矢量返回。这些纠正的强度可以使用insertBeadData原beadLevelData对象被保存在
值----------Value----------
A vector of corrected intensities.
纠正强度矢量。
作者（S）----------Author(s)----------
Mike Smith
参考文献----------References----------
beadarray, BASH and HULK - tools to increase the value of Illumina BeadArray experiments. In A. Gusnato, K.V. Mardia, & C.J. Fallaize (eds), Statistical Tools for Challenges in Bioinformatics. 2009 pp. 33-37. Leeds, Leeds University Press.
参见----------See Also----------
BASH, insertBeadData, logGreenChannelTransform, squeezedVarOutlierMethod, illuminaOutlierMethod
BASH，insertBeadData，logGreenChannelTransform，squeezedVarOutlierMethod，illuminaOutlierMethod
举例----------Examples----------
## Not run: [＃无法运行：]
if(require(beadarrayExampleData)){
data(exampleBLData)
o <- HULK(exampleBLData, 1)
}
## End(Not run)[＃结束（不运行）]
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 12:41:50
