Data Import / File readers

File readers are required to translate the format of each specific file into an internal format. File readers scan available data and create a data dictionary with keys to the data. Data stored on system hardware is thus only loaded on demand.

MaxQuant Reader

The MQReader prepares data from MaxQuant files to match the internal data format in order to provide the correct input for the plotters.

Minimum requirement to start and work with the MQReader:

• proteinGroups.txt file.

Note

The files created by MaxQuant cannot be renamed A fasta header in the proteinGroups.txt is recommended To make lfq and iBAQ available for downstream analysis they need to be enabled in MaxQuant

Note

Currently tested with MaxQuant version: 1.5+

Warning

All files to be analyzed need to be in a directory called txt

The Quality Report will use these files (if available):

• proteinGroups.txt

• peptides.txt

• parameters.txt

• summary.txt

• msScans.txt

• msmsScans.txt

• evidence.txt

If files are missing some plots of the quality control report will not be created or might be empty.

Plots for data preprocessing, normalization and exploratory analysis will use these files:

Only the proteinGroups.txt file is required.