Repository containing code to recreate figures and supplemental tables found in publication doi.org/10.1021/jasms.2c00249.
The code and data provided in this repository is meant to be accessed, viewed, tested, and reused by manuscript reviewers and readers. Most of the data has been provided alongside the code. However, the raw and mzxml files needed to recreate some items must be accessed from the ProteomeXchange Consortium. Unique accession information will be provided, following publication. If you experience any trouble in accessing or running this code, please contact me using the information below.
This repo uses python and jupyter notebooks. If you do not have either of these installed, please read further here.
Easiest way to use these notebooks is to clone/fork the repo and then install requirements.
git clone https:/github.com/lingjunli-research/pgc-glycosylation-lfq
# navigate to the new directory
cd C:/user/some/path/to/directory/pgc-glycosylation-lfq
# install requirements
pip install -r requirements.txt
This code is provided 'as is' and may be modified for personal use. If you are interested in learning more about the main packages used throughout, I would suggest reading more on Pyteomics and Altair.
grahamdelafield.com - @DGDelafield - graham.delafield@gmail.com