Abstract: A method for extracting data for biopharmaceutical analysis may include selecting, based on a first path associated with a source directory, a first file included in the source directory. The first file may be parsed to identify, based on a reference mass value, one or more entries included in the first file. The one or more entries may each include a mass value. The one or more entries may be identified based on a difference between the mass value and the reference mass value being less than a threshold value. The one or more entries may be inserted into a second file.