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Table 1 Function comparisons of IP4M and other 6 tools

From: IP4M: an integrated platform for mass spectrometry-based metabolomics data mining

Function tool IP4M MetaboAnalyst W4M Galaxy-M XCMS online MZmine2 MetaBox MS-DIAL
Raw data preprocessing
 LC–MS
 GC–MS
 NMR
 MS/MS
DIMS
Peak annotation
Peak table operations
 Normalization
 Scaling
 Zero filling
 Transformation
 Ratio variable generation
 Basic statistical summary
 Retrieve rows
 Samples and variables merging
Statistical analysis
 Univariate analysis
 Multivariate analysis         
  PCA/(O)PLS-DA
  SVM
  RF
  Biosigner
  Boruta
Pathway and enrichment analysis  
Integrated workflows
Other functions
 Correlation/distance
 Regression
 ROC analysis
 Hierarchical cluster
 Plotting tools
 Power/sample size
 Network analysis
Omics data integration analysis
Time series analysis
Developing language R, Java, Perl R, Java R R, Python, Matlab R Java R R C#,
Local GUI/web server Local GUI; Windows/Linux/OS Web server; Local R package Web server Web server Web server Local GUI; Windows/Linux/OS Local GUI; Windows/Unix/Linux Local GUI; Windows
  1. “√” means yes and “–” means no or N/A