Setup Gist for new Rshiny server VMs.

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Setup Gist for new Rshiny server VMs.

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Last edited Aug 22, 2019

Created on Aug 22, 2019

This example shows a setup script for provisioning a new R Shiny server virtual machine, listing the essential R packages and GitHub-hosted tools required for a typical bioinformatics workflow. It demonstrates how to automate dependency installation using base R functions like `install.packages()` and `install_github()` from the `devtools` package, alongside `install_bitbucket()` for MAGeCKFlute. The code explicitly names libraries such as `tidyverse`, `plotly`, `shinydashboard`, and `manhattanly`, and includes custom forks like `manhattanlyCRISPR`. The rendering approach is a plain-text R script, not a visualization, but the list clarifies the environment’s package landscape for reproducibility.

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