|Proteomics data processing into sample vs protein intensity matrices||saharak||2020-07-19|
I am interested in downloading and processing proteomics data into sample vs protein intensity matrices for various disease types that include healthy control samples.
For the datasets that have been processed with skyline, I found that there is a viewer for windows, however, I wasn’t able to find any library to parse them. How do you recommend that I process them into sample vs protein intensity matrices?
I also found "MSstats" package::SkylinetoMSstatsFormat and lipidr::read_skyline, however both require sky csv files and I am only able to download .sky file. Where can I find the csv format and if I can't directly download it, how do I process the .sky files into csv files?
Also, where would I be able to obtain information on each sample, e.g. whether diseased or normal?