MEDIPS.calibrationCurve(MEDIPS)
MEDIPS.calibrationCurve()所属R语言包：MEDIPS
Function that calculates the calibration curve
计算校准曲线的功能，
译者：生物统计家园网 机器人LoveR
描述----------Description----------
Based on the calculated genome vector (MEDIPS.genomeVector) and on the coupling vector (MEDIPS.couplingVector) of a MEDIPS SET, the function examins the dependency of local MeDIP-Seq signal intensities and local pattern (e.g. CpG) densities. Calculation of the calibration curve is achieved by first dividing the total range of coupling factors into several levels. Second, all genomic bins are partitioned into these levels by considering their associated coupling factors. Finally, for each level of coupling factors, MEDIPS calculates the mean signal and mean coupling factor of all genomic bins that fall into this level. The calibration curve represents these averaged signals and coupling factors over the full range of coupling factors. It indicates the experiment specific dependency between signal intensity and CpG density. Subsequently, the function performs a linear regression for small coupling factors of the calibration curve and records the slope and intercept of the resulting linear curve.
基于计算基因向量（MEDIPS.genomeVector）和耦合矢量一个MEDIPS集（MEDIPS.couplingVector），的功能examins当地MeDIP序列的信号强度和本地模式（如CPG）密度的依赖。校准曲线的计算是通过先分成几个层次的耦合因素的总范围。第二，所有基因的垃圾桶被划分到这些层面考虑其相关的耦合因素。最后，为每个耦合因素的水平，MEDIPS计算平均的信号，意味着所有基因箱，下降到这一水平的耦合因素。校准曲线代表这些平均信号的耦合因素的全方位和耦合因素。这表明之间的信号强度和CpG密度实验的具体依赖。随后，该函数执行一个小的耦合因素，校准曲线和记录斜坡和由此产生的线性曲线的截距的线性回归。
用法----------Usage----------
MEDIPS.calibrationCurve(data = NULL)
参数----------Arguments----------
参数：data
has to be a MEDIPS SET object
是MEDIPS集对象
值----------Value----------
The slots of the stated MEDIPS SET object associated to the calibration curve will be occupied afterwards. These are the informations about the mean signals and mean coupling factors representing the calibration curve and the estimated normalization parameters intercept and slope.
将被占领后的校准曲线相关规定MEDIPS集对象的插槽。这些都是对平均信号信息和意思表示校准曲线的截距和斜率的估计标准化参数的耦合因素。
作者（S）----------Author(s)----------
Lukas Chavez
举例----------Examples----------
library(BSgenome.Hsapiens.UCSC.hg19)
file=system.file("extdata", "MeDIP_hESCs_chr22.txt", package="MEDIPS")
CONTROL.SET = MEDIPS.readAlignedSequences(BSgenome="BSgenome.Hsapiens.UCSC.hg19", file=file)
CONTROL.SET = MEDIPS.genomeVector(data = CONTROL.SET, bin_size = 50, extend = 400)
CONTROL.SET = MEDIPS.getPositions(data = CONTROL.SET, pattern = "CG")
CONTROL.SET = MEDIPS.couplingVector(data = CONTROL.SET, fragmentLength = 700, func = "count")
CONTROL.SET = MEDIPS.calibrationCurve(data = CONTROL.SET)
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。
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发表于 2012-2-26 00:37:20
