blocksStats(Repitools)
blocksStats()所属R语言包：Repitools
Calculate statistics for regions in the genome
计算为在基因组区域的统计
译者：生物统计家园网 机器人LoveR
描述----------Description----------
For each region of interest or TSS, this routine interrogates probes or sequence data for either a high level of absolute signal or a change in signal for some specified contrast of interest. Regions can be surroundings of TSSs, or can be user-specified regions. The function determines if the start and end coordinates of anno should be used as regions or as TSSs, if the up and down coordinates are NULL or are numbers.
对于每个利益或TSS的区域，这个例程询问探针或一个绝对信号的高层次，或在一些指定的利益相反的信号变化的序列数据。区域可以是起始位置跟环境，也可以是用户指定的区域。该功能决定是否start和end坐标anno应作为区域或作为起始位置跟，如果向上和向下坐标是NULL或者是数字。
用法----------Usage----------
<p>The ANY,data.frame method: <br>
<code>blocksStats{ANY,data.frame}(x, anno, ...)</code> <br>
The ANY,GRanges method: <br>
<code>blocksStats{ANY,GRanges}(x, anno, up = NULL, down = NULL, ...)</code>
</p>
参数----------Arguments----------
Details
详情----------Details----------
For array data, the statstics are either determined by a t-test, or a linear model. For sequencing data, the two groups are assumed to be from a negative binomial distribution, and an exact test is used.
对于数组中的数据，的statstics t检验，线性模型是确定。为两个组测序数据，被认为是从负二项分布，用于精确的测试。
值----------Value----------
A data.frame, with the same number of rows as there are features described by anno, but with additional columns for the statistics calculated at each feature.
一个data.frame，行有相同数量的是anno描述的功能，但与统计计算每个功能的附加列。
作者（S）----------Author(s)----------
Mark Robinson
参见----------See Also----------
annotationLookup and annotationBlocksLookup
annotationLookup和annotationBlocksLookup
举例----------Examples----------
require(GenomicRanges)
intensities <- matrix(c(6.8, 6.5, 6.7, 6.7, 6.9,
8.8, 9.0, 9.1, 8.0, 8.9), ncol = 2)
colnames(intensities) <- c("Normal", "Cancer")
d.matrix <- matrix(c(-1, 1))
colnames(d.matrix) <- "Cancer-Normal"
probe.anno <- data.frame(chr = rep("chr1", 5),
position = c(4000, 5100, 6000, 7000, 8000),
index = 1:5)
anno <- GRanges("chr1", IRanges(7500, 10000), '+', name = "Gene 1")
blocksStats(intensities, anno, 2500, 2500, probe.anno, log2.adj = FALSE, design = d.matrix)
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 2012-2-26 12:47:24
