Project:
* Name: diaPASEF_ProteoBench
* Description: 
* Owner: rodvrees
* Created At: 2026-07-29 21:57:14
+ analyse_diapasef_1
  Description: 
  Created At: 2026-07-29 21:57:14
  Database Search Parameters:
    Precursor Mass Error Tolerance: 15.00PPM
    Fragment Mass Error Tolerance: 15.00PPM
    Enzyme: Trypsin/P
    Digest Mode: Specific
    Missed Cleavage: 1
    Target Database: ProteoBench
    Taxonomy: all species
    Peptide Length: 6 to 30
    Fixed Modifications: 
    - Carbamidomethylation
    Variable Modifications: 
    - Oxidation (M)
    Max Variable PTM Per Peptide: 1
  Peptide Filter:
    Peptide FDR(%): 1.00
  Precursor Filter:
    Precursor FDR(%): 1.00
  Protein Filter:
    Proteins -10lgP>=: 0.0000
    Proteins Unique Peptides >= 1
  Label Free Quantification Parameters:
    Q Method: ID-directed LFQ
    Increased Sensitivity: Enabled
    FDR Threshold(%): 0.0000
    RT Range: 0.0000 <= RT <= Max
    Peptide Feature: Avg. area>=0.000000, Quality>=0.000000, 1<=charge<=5,  and Detected in at least 0 samples per a group
    Protein: Significance Method ANOVA, Modified Form Exclusion, Min Significance 0.0000, 0.0000<=fold change<=64.0000, at least 1 peptide used
    Normalization: TIC
    Normalization Strategy: RT Dependent
    Groups:
    Group Name: Condition_A
    Samples: LFQ_timstofSCP_diaPASEF_Condition_A_Sample_Alpha_01,LFQ_timstofSCP_diaPASEF_Condition_A_Sample_Alpha_02,LFQ_timstofSCP_diaPASEF_Condition_A_Sample_Alpha_03
    Group Name: Condition_B
    Samples: LFQ_timstofSCP_diaPASEF_Condition_B_Sample_Alpha_01,LFQ_timstofSCP_diaPASEF_Condition_B_Sample_Alpha_02,LFQ_timstofSCP_diaPASEF_Condition_B_Sample_Alpha_03
