Perform Volcano plot analysis on selected experimental conditions followed by MS search on significant features

Group1Experimental factorGroup2
Location:A | Developmental Stage:flowering | Soil pH:neutral | Genetic cluster:G1 (5)
Location:A | Developmental Stage:rosette | Soil pH:neutral | Genetic cluster:G1 (7)
Location:B | Developmental Stage:flowering | Soil pH:neutral | Genetic cluster:G1 (6)
Location:B | Developmental Stage:rosette | Soil pH:neutral | Genetic cluster:G1 (6)
Location:C | Developmental Stage:flowering | Soil pH:neutral | Genetic cluster:G2 (6)
Location:C | Developmental Stage:rosette | Soil pH:neutral | Genetic cluster:G2 (6)
Location:E | Developmental Stage:rosette | Soil pH:slightly alkaline | Genetic cluster:G2 (6)
Location:F | Developmental Stage:flowering | Soil pH:slightly alkaline | Genetic cluster:G2 (6)
Location:F | Developmental Stage:rosette | Soil pH:slightly alkaline | Genetic cluster:G2 (6)
Location:G | Developmental Stage:rosette | Soil pH:moderately acidic | Genetic cluster:G2 (7)
Location:NA | Developmental Stage:NA | Soil pH:NA | Genetic cluster:NA (3)

Filtering Parameters
Select threshold % for selection below:
Option 1: No filtering
Option 2: Filter by Sum (Analytes whose sum for all samples falls below the threshold % will be excluded)
Option 3: Filter by Mean (Analytes whose mean for all samples falls below the threshold % will be excluded)
Option 4: Filter by Median (Analytes whose median for all samples falls below the threshold % will be excluded)
Option 5: Filter by Sample threshold       must exceed the above threshold per analyte
In order for an analyte to be retained, the % of samples in one/both groups which are non-zero must exceed the threshold.
Option 6: Remove all analytes containing null values
Sample Normalization Parameters
Normalize samples by:
Volcano Plot Parameters
P-value cutoff: Fold-change cutoff:
MS Search Parameters
Search Refmet database
MS Ion polarity:POSITIVE MS search m/z tolerance:    Feature order:
Ion adducts(choose at least one)
Positive mode:
 [M+H]+ [M+H-H2O]+ [M+Na]+ [M+NH4]+ [M+K]+ [M+2H]2+ [M+2Na]2+ [M+2Na-H]+
[M+H-EtnP]+ [M+H-SerP]+
  logo