Project:
* Name: Proteobench_Module4_Orbitrap_DIA
* Description: 
* Created at: 2024-12-23 21:19:32
+ Proteobench_Module4_Orbitrap
  Description: 
  Created at: 2024-12-23 21:19:32

  DIA Db Search Parameters:
    Precursor Mass Error Tolerance: Auto Detected
    Fragment Mass Error Tolerance: Auto Detected
    Match Between Run: Yes
    Enzyme: Trypsin
    Max Missed Cleavage: 1
    Digest Mode: Specific
    Max Variable PTM per Peptide: 1
    Fixed Modifications: 
    - Carbamidomethylation (+57.02)
    Variable Modifications: 
    - Oxidation (M) (+15.99)
    - Acetylation (Protein N-term) (+42.01)
    Database: 
    - ProteobenchModule2
      - Taxonomy: all species
      - Searched Entries: 31887
     Peptide Length between: 7,30
     Precursor M/Z between: 300,1400
     Fragment M/Z between: 50,2000
     Precursor Charge between: 1,4
    Report Filter: 
      Peptide FDR: 1.0%
      Proteins -10LgP >= 15.0
      Proteins Unique Peptides >= 1

  LFQ Parameters:
    Quantification Type: Label Free Quantification
    LFQ Method: Identification Directed Quantification
    DIA quantification preference: Increased Sensitivity
    Retention Time Range: [0.0 - Max]
    Base Sample: LFQ_Orbitrap_AIF_Condition_A_Sample_Alpha_01.raw
    Peptide Feature Filter:
      Avg Area >= 0.0
      Quality >= 0.0
      Charge between: [1 - 5]
      Detected in at least 0 samples per group
      Use in Group Coefficient of Variation Filter: No
    Protein:
      Significance Method: ANOVA
      Modified Form Exclusion: Yes
      Significance >= 0.0
      Fold Change between: [1.0 - 64.0]
      Has at least 1 Used Peptide
    Samples: 6 Samples in 6 Groups
      Group 1: 
        LFQ_Orbitrap_AIF_Condition_A_Sample_Alpha_01.raw;
      Group 2: 
        LFQ_Orbitrap_AIF_Condition_A_Sample_Alpha_02.raw;
      Group 3: 
        LFQ_Orbitrap_AIF_Condition_A_Sample_Alpha_03.raw;
      Group 4: 
        LFQ_Orbitrap_AIF_Condition_B_Sample_Alpha_01.raw;
      Group 5: 
        LFQ_Orbitrap_AIF_Condition_B_Sample_Alpha_02.raw;
      Group 6: 
        LFQ_Orbitrap_AIF_Condition_B_Sample_Alpha_03.raw;
    Normalization Method: Use TIC

