Agilent Spectrum Mill - MS/MS Autovalidation

Data Directories
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Validation Parameters
Strategy:
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Optimize score & R1-R2 score thresholds with max FDR: % across each:

Group VM sites across all directories, and group missed cleavages containing the same VM site

Method for applying combined thresholds of VM site Score and Minimum number of directories:

Minimum number of directories VM site is observed in:
Minimum VM site score:

Method for applying combined thresholds of Protein Score and Minimum number of directories:

Minimum number of directories protein group is observed in:
Minimum protein score:
  %
%
%
   
Precursor charge range: to    Min Sequence Length: Max Sequence Length: Min Backbone Cleavage Score:
Required AAs: Disallowed AAs:
Filtering 

Automatic variable range for each run 

Fixed range for all runs 

Low High  ppm

Low High
Low High
Protein Rules
RulePrecursor
Charge
Score
Threshold
% SPI
Threshold
Fwd - Rev Score
Threshold
Rank 1-2 score
Threshold
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