Sripts for parsing the output of proteomics analyses. Started writing for the mzTab and msstats_input files from quantms (https://doi.org/10.1038/s41592-024-02343-1) but can expand.
Can add Rmd files or links to other projects later to show example usage.
# if devtools not installed
# install.packages("devtools")
library(devtools)
devtools::install_github("Roman-Si/Rsripts_for_proteomics")
An analysis using this package can be found in https://github.com/Roman-Si/Asp-parasiticus_alkane_multiomics
Proteomics R packages used:
Ideas for packaging taken from
- Building reproducible analytical pipelines with R, https://raps-with-r.dev/
- Reproducible and Trustworthy Workflows for Data Science, https://ubc-dsci.github.io/reproducible-and-trustworthy-workflows-for-data-science/