DIA-BERT Source Data and Zenodo files

Source Data.xlsx includes the raw data for all figures from the main manuscript and Supplementary Information. The data is organized by each figure in separate sheets within the Excel file. Files.zip contains five seperate Excels: File Name: File 1 Description: Comparison summary of identification between DIA-NN and DIA-BERT File Name: File 2 Description: Identified peptide precursors and proteins using DIA-NN (in library-based mode) and DIA-BERT File Name: File 3 Description: Parameters for simulated data by modified Synthedia File Name: File 4 Description: Quantification of peptide precursors and proteins using DIA-NN (in library-based mode) and DIA-BERT in combined search File Name: File 5 Description: Comparison of quantification performance on the three-species dataset using DIA-BERT with different quantification models and DIA-NN.