Fig. 1.

Overview of the Sequence-Mask-Search framework. SMSNet encodes the input MS/MS spectrum and passes the information to the decoder module which outputs amino acids sequentially. During the sequencing process, relevant m/z regions from the input MS/MS spectrum are extracted and fed to the decoder. Post-processing steps involve the adjustment of positional confidence scores, the replacement of low confidence positions by mass tags, and the recovery of exact amino acid sequences in masked segments through database search.