Modified the program to allow users to specify how many experiments and controls they have

• A GUI via tkinter
• Streamlining the application/reducing overlapping code

To compare results of two MaxQuant experiments and their respective controls from a run by normalizing data from the output peptides.txt file.

Users can selected data by PEP and MS/MS count thresholds, proteins marked by MaxQuant as potential contaminats are removed by default.

Data is normalized by count and intensity columns: (Experiment 1 - Control 1, Experiment 2 - Control 2).

1. A .csv file containing aggregated, normalized data
2. A .csv file containing differentially expressed proteins + log2 fold change of intensity
3. .csv files containing proteins expressed in either Experiment 1 or Experiment 2

In your Python environment, run the sort_data_master program:

  python sort_data_master.py path/to/peptides.txt

Michael Miano