ExonCountSet-class(DEXSeq)
ExonCountSet-class()所属R语言包：DEXSeq
"ExonCountSet", a container for exon count data
“ExonCountSet”，外显子计数数据的容器
译者：生物统计家园网 机器人LoveR
描述----------Description----------
This is the principal class of DEXSeq package.
这是DEXSeq包的主要类。
类的对象----------Objects from the Class----------
Objects must be created with the function newExonCountSet (q.v.), alternatively the user can call the function read.HTSeqCounts, which will call newExonCountset.
对象必须创建与功能newExonCountSet（QV），或者用户可以调用函数read.HTSeqCounts，它将调用newExonCountset。
延伸----------Extends----------
Class eSet (package 'Biobase'), directly. Class VersionedBiobase (package 'Biobase'), by class "eSet", distance 2. Class Versioned (package 'Biobase'), by class "eSet", distance 3.
类eSet（包BIOBASE“），直接。类VersionedBiobase（包BIOBASE“类”ESET“，距离2）。类Versioned（包BIOBASE）“ESET”级，距离3。
注意----------Note----------
An ExonCountSet object stores the exon counts from high-throughput RNA sequencing experiments. It is the principal object of the DEXSeq package. Some of the slots can be added by the user (see details in newExonCountSet documentation) or alternatively, the user can fill some of the slots by using the HTSeq preprocessing steps and further calling read.HTSeqCounts, especially those with the exon annotation data. The other slots will be filled with the analysis.
一个ExonCountSet对象存储高通量RNA测序实验的外显子计数。它是的DEXSeq包的主要对象。插槽可以由用户添加（详见newExonCountSet文件），或者，用户可以使用HTSeq预处理步骤，并进一步呼吁read.HTSeqCounts，特别是那些与外显子的注释数据，填补插槽。其他时段将填补与分析。
The ExonCountSet object contains a matrix of non-negative integers which represents sequence counts, with each column representing a sample and and each row a counting bin (i.e., an exon or part of an exon). In the phenoData, the object contains information about the samples, e.g., size factors and design annotations are stored there. The user can also add more information about the other properties of the samples.
ExonCountSet对象包含一个非负整数矩阵代表顺序计数，每个代表样本的列和每行一个计数斌（即外显子或外显子的一部分）。在phenoData，该对象包含有关的样品，例如，规模因素和设计注解的信息存储在那里。用户还可以添加更多样本的其他属性信息。
An ExonCountSet object can be created just by providing a count matrix, and two vectors of gene and exon identifiers of each of the rows in the matrix. Nevertheless, the visualization plots included in DEXSeq requires additional information about the exons (chromosome, strand, start, end). This information can be added directly after the creation of the ExonCountSet object. If read.HTSeqCounts is called to create an ExonCountSet object, this information of the phenoData is inserted directly.
可以创建一个ExonCountSet对象，只是提供一个计数矩阵和向量的基因和外显子的每一个矩阵的行标识符。然而，在DEXSeq包括图的可视化要求有关的外显子（染色体，钢绞线，起点，终点）的其他信息。此信息后，可以直接添加的创造的ExonCountSet对象。如果read.HTSeqCounts呼吁创建ExonCountSet对象的，这种信息的phenoData直接插入。
The columns for size factors (in phenoData), dispersion estimates, pvalue and padjust in the featureData are filled later throughout the analysis, when the user calls estimateSizeFactors, estimateDispersions fitDispersionFunction, and testForDEU.
列大小的因素（phenoData），色散估计，pvalue和padjust的featureData充满整个分析后，当用户调用estimateSizeFactors，estimateDispersionsfitDispersionFunction，testForDEU。
举例----------Examples----------
# See the vignette[见的小插曲]
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 2012-2-25 16:34:41
