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Nesvilab / IonQuant

A label free quantification tool.
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does MBR ions part of the protein \ peptide summary table? #24

Closed merbllab closed 3 years ago

merbllab commented 3 years ago

Hi, I notice ionQuant issue a separate output file for MBR ions. are those ions also appear in the peptide / protein summary table? do I need to set a parameter other than the checkbox of MBR in the FragPipe ionQuant tab? thanks Assaf

fcyu commented 3 years ago

Hi Assaf,

The mbr_ion.tsv is a file containing all ions from MBR before FDR filtering. The ions passing FDR filtering will be in the ion.tsv, peptide.tsv, protein.tsv, combined_peptide.tsv and combined_protein.tsv.

For most cases, you don't need to change the parameter other than the checkbox of MBR.

Best,

Fengchao