loadmirnapathways(miRNApath)
loadmirnapathways()所属R语言包：miRNApath
Load gene to pathway associations for miRNApath
加载基因途径协会为miRNApath
译者：生物统计家园网 机器人LoveR
描述----------Description----------
This method loads associations between genes and the pathways to which they belong.
这种方法载入协会之间的基因和它们所属的途径。
用法----------Usage----------
loadmirnapathways(mirnaobj, pathwayfile, genecol="Entrez Gene ID",
pathwaycol="PATHWAY", columns=c(), pathwayidcol=NA)
参数----------Arguments----------
参数：mirnaobj
An object of type mirnapath containing data resulting from the loadmirnapath method.
包含数据从loadmirnapath方法一个类型mirnapath对象。
参数：pathwayfile
The file containing the gene to pathway associations.
该文件包含的基因通路协会。
参数：genecol
The name of the column header which contains the gene names associated with pathway data.
列标题的名称，其中包含与通路数据关联的基因名称。
参数：pathwaycol
The name of the column header which contains the pathway names.
其中包含的通路名称的列标题的名称。
参数：columns
The names of any additional columns in the file being read which should equate with the mirnapath object.
正在读取文件中的任何其他列的名称应等同与mirnapath对象。
参数：pathwayidcol
The (optional) column header for IDs associated with the pathway names.
通路名称的ID的列标题（可选）。
Details
详情----------Details----------
The data loaded is expected to have gene names which exactly match those gene names loaded by loadmirnatogene.
数据加载，预计将有基因完全匹配的名字载入loadmirnatogene这些基因名称。
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, runEnrichment
loadmirnapath，filtermirnapath，loadmirnatogene，loadmirnapathways，runEnrichment
举例----------Examples----------
## Load miRNA expression data from AD miRNA paper[＃从公元miRNA的纸装入miRNA表达数据]
## This data contains miRNA expression data, [＃此数据包含miRNA表达数据，]
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@mirnaPathways, file = "mirnaPathways.txt",
quote = FALSE, row.names = FALSE, col.names = TRUE, na = "",
sep = "\t");
## Load the gene to pathway associations[＃加载基因通路协会]
mirnaobj <- loadmirnapathways( mirnaobj = mirnaobj,
pathwayfile = "mirnaPathways.txt",
pathwaycol = "Pathway Name", genecol = "Entrez Gene ID");
## Display summary, noting the number of genes reported[＃显示摘要，并指出基因数目报道]
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 01:02:42
