GlobalAncova.decomp(GlobalAncova)
GlobalAncova.decomp()所属R语言包：GlobalAncova
GlobalAncova with sequential and type III sum of squares decomposition and adjustment for global covariates
GlobalAncova与顺序和Ⅲ型的总和平方分解和全球变项调整
译者：生物统计家园网 机器人LoveR
描述----------Description----------
Computation of a F-test for the association between expression values and clinical entities. The test is carried out by comparison of corresponding linear models via the extra sum of squares principle. In models with various influencing factors extra sums of squares can be treated with sequential and type III decomposition. Adjustment for global covariates, e.g. gene expression values in normal tissue as compared to tumour tissue, can be applied. Given theoretical p-values may not be appropriate due to correlations and non-normality. The functions are hence seen more as a descriptive tool.
计算一个表达式的值和临床实体之间的关联的F-检验。通过最小二乘原理的一笔额外的测试进行相应的线性模型的比较。在各种影响因素的模型平方额外的资金是可以治疗的顺序和III型分解。全球变项，例如调整在正常组织相比，肿瘤组织的基因表达的价值观，可以应用。鉴于理论的p值可能不是适当的相关性和非正态。的功能，因此被视为一个描述工具。
用法----------Usage----------
GlobalAncova.decomp(xx, formula, model.dat = NULL, method = c("sequential", "type3", "all"), test.genes = NULL, genewise = FALSE, zz = NULL, zz.per.gene = FALSE)
参数----------Arguments----------
参数：xx
Matrix of gene expression data, where columns correspond to samples and rows to genes. The data should be properly normalized beforehand (and log- or otherwise transformed). Missing values are not allowed. Gene and sample names can be included as the row and column names of xx.
基因表达数据矩阵，列对应的基因样本和行。数据应妥善事先标准化（log或以其他方式转化）。遗漏值是不允许的。基因和样本的名称，可以包含作为xx行和列的名称。
参数：formula
Model formula for the linear model.
线性模型的模型公式。
参数：model.dat
Data frame that contains all the variable information for each sample.
数据框包含每个样品的所有变量的信息。
参数：method
Whether sequential or type III decomposition or both should be calculated.
是否应计算连续或III型分解或两者。
参数：test.genes
Vector of gene names or a list where each element is a vector of gene names.
向量的基因名称或一个列表，其中每个元素都是一个向量基因名称。
参数：genewise
Shall the sequential decomposition be displayed for each single gene in a (small) gene set?
应显示（小）基因组中的每个单基因的顺序分解？
参数：zz
Global covariate, i.e. matrix of same dimensions as xx.
全球协变量，即xx尺寸相同的矩阵。
参数：zz.per.gene
If set to TRUE the adjustment for the global covariate is applied on a gene-wise basis.
如果设置为TRUE全球协变量调整是明智的基因基础上应用。
值----------Value----------
Depending on parameters test.genes, method and genewise ANOVA tables, or lists of ANOVA tables for each decomposition and/or gene set, or lists with components of ANOVA tables for each gene are returned.
根据有关参数test.genes，method和genewiseANOVA表，或ANOVA表列出了每个分解和/或基因组，或与每一个基因的ANOVA表的组成部分名单返回。
注意----------Note----------
This work was supported by the NGFN project 01 GR 0459, BMBF, Germany.
这项工作是NGFN项目01的GR 0459，BMBF的，德国的支持。
作者（S）----------Author(s)----------
Ramona Scheufele <a href="mailto:ramona.scheufele@charite.de">ramona.scheufele@charite.de</a> <br>
Reinhard Meister <a href="mailto:meister@tfh-berlin.de">meister@tfh-berlin.de</a><br>
Manuela Hummel <a href="mailto:hummel@ibe.med.uni-muenchen.de">hummel@ibe.med.uni-muenchen.de</a> <br>
Urlich Mansmann <a href="mailto:mansmann@ibe.med.uni-muenchen.de">mansmann@ibe.med.uni-muenchen.de</a>
参见----------See Also----------
Plot.sequential, pair.compare, GlobalAncova
Plot.sequential，pair.compare，GlobalAncova
举例----------Examples----------
data(vantVeer)
data(phenodata)
data(pathways)
# sequential or type III decomposition[顺序或III型分解]
GlobalAncova.decomp(xx = vantVeer, formula = ~ grade + metastases + ERstatus, model.dat = phenodata, method = "sequential", test.genes = pathways[1:3])
GlobalAncova.decomp(xx = vantVeer, formula = ~ grade + metastases + ERstatus, model.dat = phenodata, method = "type3", test.genes = pathways[1:3])
# adjustment for global covariate[全球协变量调整]
data(colon.tumour)
data(colon.normal)
data(colon.pheno)
GlobalAncova.decomp(xx = colon.tumour, formula = ~ UICC.stage + sex + location, model.dat = colon.pheno, method = "all", zz = colon.normal)
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 20:40:40
