/ShinyTPP

A basic Shiny web interface to the Trans-Proteomic Pipeline

Primary LanguageRMIT LicenseMIT

ShinyTPP

A Shiny app for running the Trans Proteomic Pipeline to search DDA proteomic data

How to use

  1. Clone the repo
  2. Open app.R in Rstudio
  3. Install libraries: tidyverse, shiny, shinydashboard, DT, xml2
  4. Click "run App" in the upper-right of app.R window. This should open a web browser
  5. Use the tabs on the left for the various TPP functions
  • While they are running, commands will generate output in the Rstudio console so you know they are working
  1. Any questions: contact winget.jm@pg.com

Features to implement

  • Multiple search engines. Currently only uses Comet due to an output writing bug in MS-GF+
  • "Re-base" two-stage searches for sensitivity with massive databases (e.g. microbiome)
  • Additional data visualizations such as descriptive overview graphics and more granular output of processed results