filter.wellaboveNEG(Agi4x44PreProcess)
filter.wellaboveNEG()所属R语言包：Agi4x44PreProcess
probes.filter (Internal function)
probes.filter（内部函数）
译者：生物统计家园网 机器人LoveR
描述----------Description----------
An internal function to be used by filter.probes
一个内部函数filter.probes
用法----------Usage----------
filter.wellaboveNEG(ddFILT, ddNORM, limNEG, SDtimes, ManuelaGO, targets, annotation.package)
参数----------Arguments----------
参数：ddFILT
A RGlist in log2 scale, normally after Normalization and other filtering steps
一个以log2规模RGlist后，通常标准化和其他过滤步骤
参数：ddNORM
An RGlist normally containing NORMALIZED data in log2 scale
通常含有规范化的数据，以log2比例的RGlist
参数：limNEG
for a given feature xi accros samples, is the minimum in a experimental condition with a intensity > Limit established for negative controls (Mean + 1.5 x SD)
对于一个给定的功能第十一accros样本，是在实验条件下具有强度>限额为阴性对照组（平均+ 1.5×SD）设立最低
参数：SDtimes
1.5 in 'Mean + 1.5 x SD'. It is fixed to 1.5 in 'filter.probes'
在1.5，平均1.5×SD“。它是固定的1.5“filter.probes”
参数：ManuelaGO
logical, if a known annotation package is available then it is TRUE
逻辑，如果一个已知的注解包是可用的，那么它是TRUE
参数：targets
data.frame with the target structure
数据框与目标结构
参数：annotation.package
a character specifying the AGI annotation package: 'hgug4112a.db','mgug4122a.db'
一个字符指定的AGI注解包：“hgug4112a.db，mgug4122a.db”
Details
详情----------Details----------
For each feature we can demand a minimum signal value that have to be reached at least for a p in one of the experimental conditions. The minimum limit is established as Mean Negative Controls + 1.5*(Std. dev.Negative Controls). Normally, after filtering by the WellAboveBG and IsFound criteria, all probes are well above negative controls.
对于每个功能，我们可以要求在实验条件之一鸭至少要达到最低的信号值。建立最低限度，平均阴性对照+ 1.5 *（标准dev.Negative控制）。通常情况下，由WellAboveBG和IsFound标准筛选后，所有探针都远远高于阴性对照。
值----------Value----------
An RGlist with signals that are above NEG controls (according to the correspondind AFE flag and the filtering options). It also writes an output file (IsNOTWellAboveNEG.txt) that contains probes that were filtered out because they were not distinguishable from negative controls.
与南德控制以上的信号（根据的correspondind AFE的标志和过滤选项）RGlist。它还写到输出文件（IsNOTWellAboveNEG.txt），其中包含被过滤掉，因为他们没有区分阴性对照探针。
作者（S）----------Author(s)----------
Pedro Lopez-Romero
参见----------See Also----------
filter.probes
filter.probes
举例----------Examples----------
## Not run: [＃无法运行：]
data(dd)
data(targets)
library(hgug4112a.db)
ddNORM=BGandNorm(dd,BGmethod='half',NORMmethod='quantile',
foreground='MeanSignal',background='BGMedianSignal',
offset=50,makePLOTpre=FALSE,makePLOTpost=FALSE)
ddFILT=filter.wellaboveBG(ddNORM,75,TRUE,targets,"hgug4112a.db")
ddFILT2=filter.wellaboveNEG(ddFILT,ddNORM,75,SDtimes=1.5,TRUE,targets,"hgug4112a.db")
dim(ddFILT2)
## End(Not run)[＃结束（不运行）]
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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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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 11:34:35
