Scripts

Clicking on a script in the table below should open a download window. Some browsers or browser configurations may block this activity. If you have trouble downloading the scripts below, please try a different browser. Alternatively, you can right/control click on the link below and choose ‘Copy Link Address’. Open a new browser tab or window, paste in this copied URL, hit return, and the download window should pop-up.

Script Name Packages Last updated
Step1_TxImport.R tximport, tidyverse, biomaRt, ensemblDB Sept 12th, 2021
Step2_dataWrangling.R ggplot2, tidyr, matrixstats, edgeR Sept 26th, 2021
Step3_multivariate.R ggplot2, tidyverse, plotly, gt, DT Oct 3rd, 2021
Step4_publicData.R rhdf5 Oct 10th, 2021
Step5_diffGenes.R limma, edgeR, SVA Oct 17th, 2021
Step6_modules.R gplots, Rcolorbrewer, heatmaply, d3heatmap Fall 2020
Step7_functionalEnrichment.R GSVA, gprofiler2, clusterProfiler, msigdbr, enrichplot Fall 2020
Step8_essentials.R, Rmarkdown_template.Rmd, Rmarkdown_essentials.Rmd, flexdashboard_essentials.Rmd Rmarkdown, Knitr, renv, flexdashboard Fall 2020
buildPkg.R devtools, usethis, roxygen2 Fall 2020