What is peptide isoform and how will it affect the MSGF+ search results?

MSGFPlus / msgfplus

MS-GF+ (aka MSGF+ or MSGFPlus) performs peptide identification by scoring MS/MS spectra against peptides derived from a protein sequence database.

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What is peptide isoform and how will it affect the MSGF+ search results? #154

Open yonghanyu opened 2 months ago

yonghanyu commented 2 months ago

Describe the question or problem

Hi there, I saw that MSGF+ will consider 128 peptide isoforms in default. However, I’ve only heard about protein isoforms. What is peptide isoforms in MSGF+ and how will this affect the search result when using the pre-digested peptide database?

Thanks in advance!