loadmirnapath(miRNApath)
loadmirnapath()所属R语言包：miRNApath
Load miRNApath Data
加载miRNApath数据
译者：生物统计家园网 机器人LoveR
描述----------Description----------
This method loads data from a tab-delimited flatfile into an object of type mirnapath to be used for further miRNA analysis.
这种方法被用于进一步的miRNA分析的类型mirnapath的对象加载到制表符分隔的平面文件中的数据。
用法----------Usage----------
loadmirnapath(mirnafile="mirna_input.txt", mirnacol="miRNA Name",
assayidcol="ASSAYID", groupcol="GROUP",
filterflagcol="FILTERFLAG", expressioncol=NA,
foldchangecol=NA, pvaluecol=NA)
参数----------Arguments----------
参数：mirnafile
The tab-delimited miRNA results file to be loaded. The file is expected to be in tall-skinny format.
加载文件的制表符分隔的miRNA的结果。预计将在高大骨感格式的文件。
参数：mirnacol
The name of the column header which contains the miRNA names being assayed.
列标题的名称，其中包含被检测的miRNA名称。
参数：assayidcol
The name of the column containing values which distinguish different assays for the same miRNA.
包含列值区分不同实验相同的miRNA的名称。
参数：groupcol
The (optional) name of the column which contains sample group information. Enrichment is run separately for each sample group, defining a unique universe for the basis of the enrichment.
列，其中包含样本组信息的名称（可选）。富集单独运行每个样品组，充实的基础上确定一个独特的宇宙。
参数：filterflagcol
The column header which does or will contain a flag distinguishing hits from non-hits. This column is typically not supplied and is created during the filtermirnapath step.
或列标题将包含从非点击标志的区别命中。此栏通常不提供，并创建在filtermirnapath一步。
参数：expressioncol
The (optional) column header for values containing the expression abundances of the miRNAs assayed.
包含的miRNA的表达丰度值的列标题（可选）检测。
参数：foldchangecol
The (optional) column header for values containing the fold changes of the miRNAs assayed.
包含的miRNA的倍数变化值的列标题（可选）检测。
参数：pvaluecol
The (pvaluecol) column header for values containing the P-values of the miRNAs assayed.
包含的miRNA的P值的值的列标题（pvaluecol）检测。
Details
详情----------Details----------
This method is the primary means for loading data into the miRNApath package.
这种方法是加载到miRNApath包中的数据的主要手段。
Data is not assumed to have any particular numerical values, however the basic column types are typically used: expression abundance, fold change, and P-value. Should one or more columns be specified and available, it will be available for filtering later on with filtermirnapath.
数据不认为有任何特定的数值，但基本的列类型通常用于表达丰度，fold change，P值。应指定一个或多个列和可用，这将是用于过滤以后filtermirnapath。
The group column assumes there is one column containing all sample group information.
假设有一列包含所有样本组信息组列。
The assayid column is used to distinguish multiple assays for the same miRNA, such as different vendors, or even different preparations of the same miRNA assay.
assayid列用于区分多个相同的miRNA，如不同的供应商，甚至不同的或相同的miRNA检测准备，检测。
值----------Value----------
The method returns an object of type mirnapath, a list with components:
该方法返回一个对象，一个组件的列表类型mirnapath：
参数： mirnaTable
data.frame containing the miRNA results data
数据框包含miRNA的结果数据
参数： columns
list containing the names of required column headers associated to the actual column header supplied in the dataset contained in mirnaTable. Required headers: mirnacol, assayidcol. Optional headers: groupcol, pvaluecol, foldchangecol, expressioncol, filterflagcol
包含关联到实际列头在包含在mirnaTable数据集提供所需的列头名的名单。所需头文件：mirnacol，assayidcol。可选的标题：groupcol，pvaluecol，foldchangecol，expressioncol，filterflagcol
参数： groupcount
the number of groups contained in mirnaTable using the groupcol, if supplied
包含在mirnaTable使用groupcol，如果提供的组数
参数： state
the current state of the object, using the following values in order of progress through the typical workflow: unfiltered, filtered, enriched.
对象的当前状态，为了进步，通过典型的工作流程使用以下值：未经过滤，过滤，丰富。
作者（S）----------Author(s)----------
James M. Ward <a href="mailto:jmw86069@gmail.com">jmw86069@gmail.com</a>
参考文献----------References----------
in Alzheimer's disease brain and CSF yields putative biomarkers and insights into disease pathways, Journal of Alzheimer's Disease 14, 27-41.
参见----------See Also----------
loadmirnapath, filtermirnapath, loadmirnatogene, loadmirnapathways
loadmirnapath，filtermirnapath，loadmirnatogene，loadmirnapathways
举例----------Examples----------
## Start with miRNA data from this package[从这个包＃开始的miRNA数据]
data(mirnaobj);
## Write a file as example of required input[＃写的一个文件所需的输入为例]
write.table(mirnaobj@mirnaTable, file = "mirnaobj.txt",
quote = FALSE, row.names = FALSE, col.names = TRUE, na = "",
sep = "\t");
## Now essentially load it back, but assign column headers[＃现在基本上加载它，但指定的列标题]
mirnaobj <- loadmirnapath( mirnafile = "mirnaobj.txt",
pvaluecol = "P-value", groupcol = "GROUP",
mirnacol = "miRNA Name", assayidcol = "ASSAYID" );
## Display summary information for the resulting object[＃显示生成的对象的摘要信息。]
mirnaobj;
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 01:02:35
