newExonCountSet(DEXSeq)
newExonCountSet()所属R语言包：DEXSeq
Creates an ExonCountSet object
创建一个ExonCountSet对象
译者：生物统计家园网 机器人LoveR
描述----------Description----------
This function creates an ExonCountSet object from a matrix or data.frame of read counts.
这个函数创建一个矩阵或数据框读计数ExonCountSet对象。
用法----------Usage----------
newExonCountSet(countData, design, geneIDs, exonIDs, exonIntervals=NULL,
transcripts=NULL)
参数----------Arguments----------
参数：countData
A matrix or data frame of count data of non-negative integer values. The rows correspond to counts for each exon counting bin, the columns correspond to samples. Note that biological replicates should each get their own column, while the counts of technical replicates (i.e., several sequencing runs/lanes from the same sample) should be summed up into a single column.
一个非负整数的值计数数据矩阵或数据框。行对应每个外显子计数斌的罪名，列对应的样本。需要注意的是生物复制应该得到自己的专栏中，而复制技术的计数（即，几个从同一样品的测序运行/车道）应总结成一个单一的列。
参数：design
A factor or data frame with the design annotation (e.g. treatments, or tissue types, or phenotypes, or the like). The length of the factor (or rows in the data frame) has to be equal to the number of columns of the countData matrix, assigning a condition to each sample. If 'design' is not a factor, it will be converted to one.
与设计注释的因素或数据框（如治疗，或组织类型，或表型，或类似）。因子（或数据框中的行）的长度是相等的countData矩阵的列数，条件分配到每个样品。如果“设计”是不是一个因素，它会被转换为一个。
参数：geneIDs
A vector of gene identificators ordered according to its respective row in countData. If the gene "x" has four exon counting bins and therefore four rows in countData, then "x" must be four times in the vector. If it is not a factor, it will be converted to one.
一个向量基因identificators的命令根据其在countData各自行。如果“X”的基因有4个外显子计数箱和在countData因此四行，然后“X”必须是四倍的向量。如果它是不是一个因素，它会被转换为一个。
参数：exonIDs
A character vector of exon identifiers ordered according to the rows in countData. The identifiers names can be repeated between genes but not within genes.
一个外显子标识符的字符向量下令根据countData行。可重复的标识符名称之间的基因，但不属于基因。
参数：exonIntervals
A data frame with exon annotation information. The number of rows in the data needs to be of the same length as the number of rows in countData. The columns names must contain the values "chr", "start", "end", "strand". This information is only needed for the plotDEXSeq function, not for the actual tests.
与外显子的注释信息的数据框。数据中的行的数量必须是相同长度的行在countData数。列名必须包含值“CHR”，“开始”，“结束”，“链”。此信息只需要为plotDEXSeq功能，实际测试。
参数：transcripts
A character vector of the same length as the rows of the count data containing, for each row in countData, a concatenation of transcript IDs separated by the character ";". This means that if an exon is contained in the transcripts "A", "B" and "C", the field of the row corresponding to that exon should contain "A;B;C". This information is only needed for the plotDEXSeq function, not for the actual tests.
“;”计数包含数据行的长度相同，每个在countData行，字符分隔的成绩单ID串联的特征向量。这意味着，如果一个外显子包含在成绩单“A”，“B”和“C”，该行的领域，相应的外显子应该包含“A，B，C”。此信息只需要为plotDEXSeq功能，实际测试。
值----------Value----------
An object of class ExonCountSet.
对象类ExonCountSet。
参见----------See Also----------
read.HTSeqCounts
read.HTSeqCounts
举例----------Examples----------
data("pasillaExons", package="pasilla")
ecs <- newExonCountSet(
countData=counts(pasillaExons),
design=design(pasillaExons),
geneIDs=geneIDs(pasillaExons),
exonIDs=exonIDs(pasillaExons))
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 2012-2-25 16:35:26
