TMT-Integrator 3.0.0

• Add a check point to check parameters and PSM tables prior further process
  1. Reference intensity is used for abundance calculation if the MS1 intensity is absence.
  2. No gene report is exported if the gene is absence, and the protein ID will be used for other tables.
• An additional multi-mass report (i.e., groupby=5) is generated for N- and O-glycosylation data sets.
• Simplify mod tags in the mod_tag parameter, i.e., mod_tag: N-glyco/O-glyco for glycosylation
• Use assigned modification column to filter PSMs (instead of modified peptide column)
• Shorten filename
• Truncate modification mass to four digits
• Use Protein ID, instead of Protein
• add protein ID in peptide/site-level reports
• change column name (Proteins to Protein)
• bug fixing and other improvements