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MS-PEP

A shiny app to analyze mass spectrometry data for peptide cleavage patterns

Requirements

R 3.5 or higher

Optionally: RStudio or other interface

Required data

  1. MS data txt file in tab-separated table form:

Column 1: M/Z

Column 2: Intensity

  1. Peptide sequence that was analyzed

How to use:

First use:

Uncomment line 28-35 in app.R in case some packages still need to be installed. (Optionally but not necesarry: comment line 39-45)

All uses:

Download both app.R and mzR-functions.R files in single directory. Run app.R using RStudio or by running following command in R: shiny::runApp('Path to directory where app.R is saved')

Upload MS data and insert sequence. Click on submit.

Packages used:

MALDIquant
MALDIquantForeign
xlsx
stringr
shiny
shinyWidgets
plotly

Online tool:

The tool has been published online at: https://bioit.shinyapps.io/PARs/