Mercurial > repos > proteomisc > preprocess_dataset

comparison preprocess_datasets/Affymetrix_Preprocessing.R @ 29:d0f05795e9b0 draft

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author proteomisc
date Tue, 05 Dec 2023 12:16:17 +0000
parents 183b24bc8574
children 9d2343a87802
comparison
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28:183b24bc8574 29:d0f05795e9b0
80 plotDensities(exprs(Prepro_object$data.norm),log=T) 80 plotDensities(exprs(Prepro_object$data.norm),log=T)
81 invisible(dev.off()) 81 invisible(dev.off())
82 82
83 AffymetrixRmd=file_path("Affymetrix.Rmd") 83 AffymetrixRmd=file_path("Affymetrix.Rmd")
84 Style=file_path("look.css") 84 Style=file_path("look.css")
85 suppressWarnings(suppressMessages(markdownToHTML(AffymetrixRmd,output="PreprocessingPlots.html", stylesheet=Style))) 85 suppressWarnings(suppressMessages(knit(AffymetrixRmd,output="PreprocessingPlots.html",quiet = T)))
86 #suppressWarnings(suppressMessages(markdownToHTML(AffymetrixRmd,output="PreprocessingPlots.html", stylesheet=Style)))
86 #suppressWarnings(suppressMessages(knit2html(AffymetrixRmd,output="PreprocessingPlots.html",quiet = T))) 87 #suppressWarnings(suppressMessages(knit2html(AffymetrixRmd,output="PreprocessingPlots.html",quiet = T)))
87 rm(listArguments) 88 rm(listArguments)
88 save.image("MicroArray.Preprocessing.RData") 89 save.image("MicroArray.Preprocessing.RData")
89 sink() 90 sink()
90 sink() 91 sink()