R语言 rqubic包 quBicluster()函数中文帮助文档(中英文对照)

loveR

quBicluster(rqubic)
quBicluster()所属R语言包：rqubic

                                        Qualitative Biclustering
                                         定性双分群

                                         译者：生物统计家园网 机器人LoveR

描述----------Description----------

The function takes seeds and quantileDiscretized ExpressionSet as input, biclusters the data and returns an object holding biclusters. Users may control the report number of clusters, tolerance of incoherent genes (or conditions), as well as the filtering of redundant clusters.
函数作为输入种子和quantileDiscretized ExpressionSet，biclusters的数据，并返回一个对象，持有biclusters。用户可以控制聚类的报告数量，语无伦次基因公差（或条件），以及过滤冗余聚类。


用法----------Usage----------


quBicluster(seeds, eset, report.no = 100L, tolerance = 0.95, filter.proportion = 1)



参数----------Arguments----------

参数：seeds
An object of the S3-class rqubicSeeds, representing seeds generated from the quantileDiscretized expression data
S3级rqubicSeeds，代表从quantileDiscretized表达数据的生成种子的对象


参数：eset
Discretized expression data
离散表达数据


参数：report.no
Number of biclusters that should be reported. Detected biclusters are ranked by the S-score, which is defined by the product of gene counts and sample counts. They are ordered and the top ones are reported.
数量应当报biclusters。检测biclusters排名由S-得分，这是由基因数和样本数的乘积定义。他们是有序的和顶端的报告。


参数：tolerance
Percentage of tolerated incoherent samples, 0.95 by default
容忍语无伦次样品，默认情况下，0.95的百分比


参数：filter.proportion
Proportion of a cluster, over which the cluster is considered as redudant. Each bicluster is compared to all better ranking biclusters, and the overlapping proportion is measured by the proportion of the product of overlapping samples and overlapping        genes, to the product samples and genes. If the proportion is larger than the given threshold, the block will be considered redundant and therefore not reported. Setting the threshold to 1 (default) does not perform any filtering.
聚类中的比例，超过该聚类被认为是为redudant。系统每个的bicluster相比，所有更好的排名biclusters，重叠的比例由重叠的样本和重叠的基因，产品样本和基因产品的比例来衡量。如果这个比例大于给定的阈值，块将被认为是多余的，因此没有报道。的阈值设置为1（默认）不执行任何过滤。


Details

详情----------Details----------

The function calls a C routine to perform the biclustering. Currently the routine returns blocks with fewer samples specified by the minimum column number, due to the set of tolerance values. This might be changed in the fewer versions.
函数调用一个C程序来执行的双聚类。目前，该例程返回块最小列数指定更少的样品，由于公差值。在较少的版本，这可能会改变。


值----------Value----------

An object of the QUBICBiclusterSet-class, holding all biclusters.
QUBICBiclusterSet-class的对象，持有所有biclusters。


作者（S）----------Author(s)----------



Jitao David Zhang <jitao_david.zhang@roche.com>




参考文献----------References----------

analyses of gene expression data Nucleic Acids Research 37:e101

参见----------See Also----------

quantileDiscretize and generateSeeds
quantileDiscretize和generateSeeds


举例----------Examples----------


data(sample.ExpressionSet)
rqubic.example.discret <- quantileDiscretize(sample.ExpressionSet, rank=2L)

rqubic.example.sel.seeds <- generateSeeds(rqubic.example.discret, minColWidth=2L)

rqubic.example.blocks <- quBicluster(rqubic.example.sel.seeds,
    rqubic.example.discret,
    report.no=200L,
    filter.proportion=0.1)

## print features in each bicluster[＃打印功能，在每个bicluster]
BCfeatures(rqubic.example.blocks)

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。