regroupingSamples: Regroup

In spell098/rnaseq_functions2: Contain various functions for rnaseq analysis

Description

Regroup

Usage

regroupingSamples(fileContent, groupBy, expr.matrix, selectedVariables,
  noCluster = NULL, names1, comparisonsTable = NULL, exprset = NULL)

Examples

gset <- getGEO("GSE54839", GSEMatrix =TRUE,getGPL = FALSE) #GSE61276 GSE12654 GSE54839 Methylation: GSE18111

exprset <- gset[[1]]
expr.matrix <- exprs(exprset)
names1 <- get_names(sampleNames(exprset))
groupBy <- "group"
#expr.matrix <- readRDS("data/expr_matrix_LGVD.rds")
noCluster <- 3
fileContent <- "Expression Set"
names1 <- get_names(expr.matrix)
selectedVariables <- "characteristics_ch1"
selectedReplicates <- "source_name_ch1"
comparisonsTable <- comparisonsPheno(exprset)[[2]]
expr.matrix2 <- unduplicate(comparisonsTable,selectedReplicates,expr.matrix)
namesTable <- comparisonsTable
names2 <- namesSelectedComparisons(namesTable)

spell098/rnaseq_functions2 documentation built on May 30, 2019, 7:57 a.m.