Applied-Bioinformatics-2025

Getting this repo

In RStudio, create a new project from version control using https://github.com/SuLab/Applied-Bioinformatics-2025.git

Windows users only: Install Rtools

From https://cran.r-project.org/bin/windows/Rtools/rtools44/rtools.html, click "Rtools 44 installer" link. Click downloaded file to install, use all defaults.

Install/restore everything else

renv::restore()

If you hit issues using renv, then do the following steps instead

install camprotR

• renv::install("remotes")
• remotes::install_github("CambridgeCentreForProteomics/camprotR", dependencies = TRUE)

install diann

• (Windows only) install g++ (compiler) from https://jmeubank.github.io/tdm-gcc/download/ -- choose the 64+32-bit MinGW-w64 edition version, then restart
• remotes::install_github("vdemichev/diann-rpackage", dependencies = TRUE)

for all other packages, you should be able to use install.packages as normal.

Course materials

• Course Recordings

2025-01-07

• Overall class intro
• Introduction to Proteomics; Importing proteomics data into R