library(hgu133plus2.db)
library(GEOquery)
a=getGEO(‘GSE103091’,destdir = ‘.’)
metadata=pData(a[[1]])[,c(2,11,12,13,14,15)]
datTraits = data.frame(gsm=metadata[,1],
age =trimws(sapply(as.character(metadata
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characteristicsch1.1),function(x)strsplit(x,":")[[1]][2])),meta=trimws(sapply(as.character(metadatacharacteristics_ch1.2),function(x) strsplit(x,"😊[[1]][2])),
mfs = trimws(sapply(as.character(metadata
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os=trimws(sapply(as.character(metadataKaTeX parse error: Undefined control sequence: \t at position 194: …trix.txt",sep="\̲t̲",header=T,chec…probe_id <- rownames(exprSet)
exprSet_symbol <- merge(probe2symbol, exprSet, by = “probe_id”)
dim(exprSet) #查看合并前的探针数目
dim(exprSet_symbol) #查看合并后的探针数目。可以见到除去了部分没有注释的探针。
exprSet_symbolKaTeX parse error: Expected 'EOF', got '#' at position 18: …obe_id <- NULL #̲删掉不要的probe_id e…symbol), FUN = median)
rownames(exprSet_symbol) <- exprSet_symbol[,1]
exprSet_symbol <- exprSet_symbol[,-1]
mydata <- exprSet_symbol
save(mydata,datTraits,file = ‘GSE103091-wgcna-input.RData’)
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最新推荐文章于 2023-09-27 21:13:52 发布
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