diff --git a/.RData b/.RData
deleted file mode 100644
index 929ce29797a1ac33cd52ab858bd1ae9ed17de8f0..0000000000000000000000000000000000000000
Binary files a/.RData and /dev/null differ
diff --git a/.Rhistory b/.Rhistory
deleted file mode 100644
index 2aed2d46480910b29baa911033fad5b39146a869..0000000000000000000000000000000000000000
--- a/.Rhistory
+++ /dev/null
@@ -1,201 +0,0 @@
-shiny::runApp('corplot')
-shiny::runApp('corplot')
-c
-tumor_expression_plot_Christoffer <- read.delim("~/tumor_expression_plot_Christoffer.txt", row.names=1)
-View(tumor_expression_plot_Christoffer)
-cormat<-signif(cor(tumor_expression_plot_Christoffer),2)
-cormat
-View(cormat)
-col<- colorRampPalette(c("blue", "white", "red"))(20)
-heatmap(cormat, col=col, symm=TRUE)
-cormat<-signif(cor(tumor_expression_plot_Christoffer),1)
-View(cormat)
-cormat<-signif(cor(1,tumor_expression_plot_Christoffer))
-cormat<-signif(1,cor(tumor_expression_plot_Christoffer))
-View(cormat)
-cormat<-signif(cor(tumor_expression_plot_Christoffer))
-View(cormat)
-dist(tumor_expression_plot_Christoffer)
-cor(tumor_expression_plot_Christoffer)
-cor(tumor_expression_plot_Christoffer,2)
-cor(tumor_expression_plot_Christoffer),2
-cor(tumor_expression_plot_Christoffer)
-runApp('corplot')
-runApp('Downloads/shinyCorrplot-gh-pages')
-shiny::runApp('corplot')
-runApp('corplot')
-runApp('corplot')
-runApp('corplot')
-runApp('corplot')
-runApp('corplot')
-runApp('corplot')
-runApp('corplot')
-shiny::runApp('corplot')
-shiny::runApp('corplot')
-shiny::runApp('corplot')
-runApp('corplot')
-shiny::runApp('corplot')
-install.packages("h5")
-shiny::runApp('corplot')
-shiny::runApp('publication/corplot')
-?cormat
-?cormap2
-shiny::runApp('publication/corplot')
-shiny::runApp('publication/corplot')
-?cormap2
-runApp('publication/corplot')
-library(coreheat)
-?cormap2
-shiny::runApp('publication/corplot')
-runApp('publication/corplot')
-?citation
-citation(package = "ggcorrplot")
-library(ggcorrplot)
-install.packages("ggcorrplot")
-library(ggcorrplot)
-citation(package = "ggcorrplot")
-install.packages("graphics")
-install.packages("graphics")
-install.packages("graphics")
-install.packages("graphics")
-install.packages("graphics")
-library(graphics)
-??graphics
-?graphics
-install.packages("dataSet")
-install.packages("grDevices")
-install.packages("grDevices")
-install.packages("grDevices")
-library(grDevices)
-?grDevices
-library(grid)
-?grid
-install.packages("dataset")
-install.packages("altset")
-q
-quit
-exit
-citation()
-citation(package = "ggally")
-install.packages("ggally")
-install.packages("GGally")
-library(GGally)
-citation(package = "GGally")
-citation(package = "corrplot")
-citation(package = "GGally")
-citation()
-citation(package = "ggcorrplot")
-citation(package = "shiny")
-library("coreheat")
-?cormap2
-shiny::runApp('publication/corplot')
-library(corrplot)
-library(coreheat)
-?coreheat
-library(coreheat)
-?coreheat
-library(heatmapGen2)
-?heatmapGen2
-.libPaths()
-.libPaths()
-myLibraryLocation <- .libPaths()[1]
-cranPackages <- c("shinyBS", "shinythemes", "knitr", "rmarkdown", "shinyjs", "plyr", "RColorBrewer", "R.utils", "gdata", "data.table", "foreach", "ggplot2", "scales", "curl", "openssl", "httr", "Rcurl", "XML", "WGCNA")
-sapply(cranPackages, install.packages, lib = myLibraryLocation)
-bioConPackages <- c("AnnotationDbi", "biomaRt", "org.Hs.eg.db", "org.Mm.eg.db", "Heatplus", "genefilter", "impute", "preprocessCore", "Go.db")
-if (!requireNamespace("BiocManager", quietly = TRUE))
-install.packages("BiocManager")
-BiocManager::install(bioConPackages)
-install.packages("/home/dhajam/publication/corplot/packages/coreheat_0.1.0_R_x86_64-pc-linux-gnu.tar.gz", repos = NULL, type="source")
-library(coreheat)
-install.packages('rsconnect')
-rsconnect::setAccountInfo(name='biocpr',
-token='D7412524543BF89B036143D3FB9F8A57',
-secret='<SECRET>')
-rsconnect::setAccountInfo(name='biocpr',
-token='D7412524543BF89B036143D3FB9F8A57',
-secret='SHRyvzmyM0DRFzfxbuChXTZq7uxP7qcGdO3kw+XX')
-rsconnect::setAccountInfo(name='biocpr',
-token='D7412524543BF89B036143D3FB9F8A57',
-secret='SHRyvzmyM0DRFzfxbuChXTZq7uxP7qcGdO3kw+XX')
-lucid$currentUser()
-library(rsconnect)
-rsconnect::setAccountInfo(name='biocpr',
-token='D7412524543BF89B036143D3FB9F8A57',
-secret='SHRyvzmyM0DRFzfxbuChXTZq7uxP7qcGdO3kw+XX')
-rsconnect::setAccountInfo(name='biocpr',
-token='D7412524543BF89B036143D3FB9F8A57',
-secret='SHRyvzmyM0DRFzfxbuChXTZq7uxP7qcGdO3kw+XX')
-shiny::runApp('publication/corplot')
-runApp('publication/corplot')
-runApp('publication/corplot')
-runApp('/home/dhajam/publication/corplot')
-library(rsconnect)
-rsconnect::deployApp('/home/dhajam/publication/corplot')
-shiny::runApp('publication/corplot')
-shiny::runApp('publication/corplot')
-rsconnect::deployApp('/home/dhajam/publication/corplot')
-runApp('publication/corplot')
-runApp('publication/corplot')
-shiny::runApp()
-runApp()
-rsconnect::deployApp('/home/dhajam/publication/corplot')
-rsconnect::deployApp('/home/dhajam/publication/corplot')
-allPackages <- installed.packages()
-allPackages <- allPackages[ is.na(allPackages[,4]), 1]
-sapply(allPackages, remove.packages)
-shiny::runApp()
-runApp()
-rsconnect::deployApp('/home/dhajam/publication/corplot')
-install.packages("rsconnect")
-install.packages("rsconnect")
-rsconnect::deployApp('/home/dhajam/publication/corplot')
-rsconnect::deployApp('/home/dhajam/publication/corplot')
-rsconnect::deployApp('/home/dhajam/publication/corplot')
-rsconnect::appDependencies('/home/dhajam/publication/corplot')
-if (!requireNamespace("BiocManager", quietly = TRUE))
-install.packages("BiocManager")
-installed.packages()
-devtools::install_github("cancer-genetics-utu/readR")
-install
-install.packages("devtools")
-devtools::install_github("cancer-genetics-utu/readR")
-rsconnect::deployApp('/home/dhajam/publication/corplot')
-devtools::install_github("cancer-genetics-utu/medseqr")
-devtools::install_github("cancer-genetics-utu/coreheat")
-devtools::install_github("cancer-genetics-utu/genRal")
-devtools::install_github("cancer-genetics-utu/heatmapGen")
-devtools::install_github("cancer-genetics-utu/heatmapGen2")
-devtools::install_github("cancer-genetics-utu/PAMhm")
-cran_packages <- c("R.methodsS3", "R.oo", "R.utils", "RColorBrewer", "RCurl", "XML", "clipr", "cluster", "curl", "data.table","devtools", "digest", "foreach", "gdata", "ggplot2", "httr", "knitr", "openssl", "plyr", "rmarkdown", "scales", "shiny", "shinyBS", "shinyjs", "shinythemes", "WGCNA")
-bio_packages <- c("AnnotationDbi", "Biobase", "BiocGenerics", "GO.db", "Heatplus", "IRanges", "S4Vectors", "biomaRt", "genefilter", "impute", "latticeExtra", "org.Hs.eg.db", "org.Mm.eg.db", "preprocessCore")
-sapply(cran_packages, install.packages)
-if (!requireNamespace("BiocManager", quietly = TRUE))
-install.packages("BiocManager")
-BiocManager::install(bio_packages)
-install.packages("impute")
-BiocManager::install("impute")
-install.packages("WGCNA")
-rsconnect::deployApp('/home/dhajam/publication/corplot')
-devtools::install_github("cancer-genetics-utu/readR")
-devtools::install_github("cancer-genetics-utu/medseqr")
-devtools::install_github("cancer-genetics-utu/coreheat")
-devtools::install_github("cancer-genetics-utu/genRal")
-devtools::install_github("cancer-genetics-utu/heatmapGen")
-devtools::install_github("cancer-genetics-utu/heatmapGen2")
-devtools::install_github("cancer-genetics-utu/PAMhm")
-devtools::install_github("cancer-genetics-utu/medseqr")
-rsconnect::deployApp('/home/dhajam/publication/corplot')
-BiocManager::install("Heatplus")
-rsconnect::deployApp('/home/dhajam/publication/corplot')
-options(repos = BiocManager::repositories())
-getOption("repos")
-rsconnect::deployApp('/home/dhajam/publication/corplot')
-options(repos="https://CRAN.R-project.org")
-getOption("repos")
-options(repos = BiocManager::repositories())
-getOption("repos")
-rsconnect::deployApp('/home/dhajam/publication/corplot')
-options(repos = "https://CRAN.R-project.org")
-getOption("repos")
-options(repos = BiocManager::repositories())
-rsconnect::deployApp('/home/dhajam/publication/corplot')
diff --git a/rsconnect/shinyapps.io/biocpr/corplot.dcf b/rsconnect/shinyapps.io/biocpr/corplot.dcf
index 9665cde30ebc9911d47dee2ba07174b7bb35b767..1497ee82870f8d2e540a9218acd83a2c485f230f 100644
--- a/rsconnect/shinyapps.io/biocpr/corplot.dcf
+++ b/rsconnect/shinyapps.io/biocpr/corplot.dcf
@@ -5,6 +5,6 @@ account: biocpr
 server: shinyapps.io
 hostUrl: https://api.shinyapps.io/v1
 appId: 2285412
-bundleId: 3220865
+bundleId: 4780472
 url: https://biocpr.shinyapps.io/corplot/
-when: 1591145681.80498
+when: 1625226629.75996