EQTL MATRIX _EQTL
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4 months ago
Nai ▴ 20

setwd("C:/Users/genetics/Desktop/Plant_39/eqtl/")

getwd() [1] "C:/Users/genetics/Desktop/Plant_39/eqtl" library(MatrixEQTL) base.dir = find.package("MatrixEQTL") useModel = modelLINEAR SNP_file_name = paste(base.dir, "SNP.txt", sep="") expression_file_name = paste(base.dir, "GE.txt", sep="") covariates_file_name = character() output_file_name = tempfile() pvOutputThreshold = 1e-2 errorCovariance = numeric() snps = SlicedData$new() snps$fileDelimiter = "\t" snps$fileOmitCharacters = "NA" snps$fileSkipRows = 1 snps$fileSkipColumns = 1 snps$fileSliceSize = 2000 snps$LoadFile( SNP_file_name ) Error in file(description = filename, open = "rt", blocking = FALSE, raw = FALSE) : cannot open the connection In addition: Warning message: In file(description = filename, open = "rt", blocking = FALSE, raw = FALSE) : cannot open file 'C:/Program Files/R/R-4.0.3/library/MatrixEQTLSNP.txt': No such file or directory

SNP.txt GE.txt EQTL • 102 views
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