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

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transScores(GGtools)
transScores()所属R语言包：GGtools

                                         obtain the top trans associations for each SNP in an smlSet
                                         每个SNP反协会在smlSet获得

                                         译者：生物统计家园网 机器人LoveR

描述----------Description----------

obtain the top trans associations for each SNP in an smlSet
每个SNP反协会在smlSet获得


用法----------Usage----------


transScores(smpack, snpchr = "chr1", rhs, K = 20, targdirpref = "tsco", geneApply = lapply,
  chrnames = paste("chr", as.character(1:22), sep = ""), geneRanges = NULL, snpRanges = NULL,
  radius = 2e+06, renameChrs = NULL, probesToKeep = NULL, batchsize = 200, genegran = 50, shortfac = 10, wrapperEndo = NULL)

mtransScores (smpackvec, snpchr = "chr1", rhslist, K = 20, targdirpref = "multtsco",
    geneApply = lapply, chrnames = paste("chr", as.character(1:22), sep=""),
    geneRanges = NULL, snpRanges = NULL, radius = 2e+06, renameChrs=NULL,
    batchsize=200, genegran=50, probesToKeep=NULL, shortfac=10, wrapperEndo=NULL)




参数----------Arguments----------

参数：smpack
name of package holding eset.rda providing 'ex' ExpressionSet when loaded, and holding SnpMatrix instances in inst/parts  
包控股eset.rda提供“前”ExpressionSet加载时，INST /零件SnpMatrix实例名称


参数：smpackvec
vector of names of package holding eset.rda providing 'ex' ExpressionSet when loaded, and holding SnpMatrix instances in inst/parts  
向量控股eset.rda包名称为“前”ExpressionSet加载时，INST /零件SnpMatrix实例的


参数：snpchr
name or vector of chromosome names of SNPs of interest  
向量的染色体利益的SNPs名称或名称


参数：rhs
right hand side of snp.rhs.tests model for which expression is left hand side, e.g., covariates other than genotype  
模型的表达snp.rhs.tests右侧左侧，例如，协变量比基因型


参数：rhslist
list of right hand side of snp.rhs.tests model for which expression is left hand side, e.g., covariates other than genotype, one per element of smpackvec  
模型的表达snp.rhs.tests右侧的列表左侧，例如，协变量其他超过基因型，每一个元素smpackvec


参数：K
number of most highly associated features to be retained  
要保留功能最高度相关的数


参数：targdirpref
prefix of target folder name (passed to eqtlTests  
前缀的目标文件夹的名称（传递eqtlTests的


参数：geneApply
passed to eqtlTests  
传递eqtlTests的


参数：chrnames
names of chromosomes harboring genes that will be tested for association with genotype  
窝藏将用于测试与基因型的基因染色体的名字


参数：geneRanges
list of GRanges-class instances containing chromosomal coordinate defined regions occupied by genes, with regions partitioned by chromosomes, and list element names as given in chrnames above  
GRanges-class以上chrnames包含由染色体由基因染色体协调定义占领的区域，划分区域的实例，列表中的元素名称列表


参数：snpRanges
list of GRanges-class instances with SNP addresses  
GRanges-class实例与SNP地址列表


参数：radius
radius within which an association is considered cis and therefore the corresponding test statistic is set to zero  
半径内，协会被认为是独联体，因此，相应的检验统计量设置为零


参数：renameChrs
passed to getSS  
传递getSS的


参数：probesToKeep
passed to getSS  
传递getSS的


参数：batchsize
defines batch size for ffrowapply  
定义为ffrowapply批量大小


参数：genegran
passed to eqtlTests  
传递eqtlTests的


参数：shortfac
passed to eqtlTests  
传递eqtlTests的


参数：wrapperEndo
a function accepting and returning an smlSet instance  
一个函数接受和返回smlSet实例


值----------Value----------

a list with elements
一个元素的列表


参数：scores
an S by K ff matrix where S is number of SNPs, K is number of best features to be retained, with element s,k the kth largest score statistic among association tests computed for SNP s
杀敌矩阵S是单核苷酸多态性的数量，S，K是最好要保留功能，元素S，k为第k个最大之间关联的SNP小号计算测试得分统计


参数：inds
an S by K ff matrix with s,k element telling which element of guniv (see below) is the gene giving the kth largest score statistic for association
杀敌矩阵，S，K元素，告诉元素guniv（见下文）的基因，使第k个最大的协会得分统计小号


参数：guniv
the vector of gene identifiers defining the universe of genes tested
基因标识的向量，基因测试确定宇宙


参数：snpnames
vector of SNP identifiers
向量的SNP标识符


参数：call
the call used to create the result
用于创建结果的呼叫


作者（S）----------Author(s)----------



VJ Carey <stvjc@channing.harvard.edu>




举例----------Examples----------


## Not run: [＃无法运行：]
library(GGdata)
# need to define the geneRanges and snpRanges ...[需要定义的geneRanges和snpRanges ...]
transScores("GGdata", "20", renameChrs="chr20", chrnames="chr21")

## End(Not run)[＃结束（不运行）]

转载请注明:出自 生物统计家园网(http://www.biostatistic.net)。


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