TidyMass
TidyMass
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Preface
Chapter 1 Installation
1 Install tidymass
2 Update tidymass
3 Docker version of tidymass
4 Build your own docker
Chapter 2 massDataset package
1 Create mass_dataset class
2 Add MS2 spectra
3 Create mass_dataset class from other tools
4 Extract data
5 Processing information
Chapter 3 Data format converter
1 proteowizard
2 massconverter
Chapter 4 Raw data processing
Raw data processing
Chapter 5 Explore data
Explore data
Chapter 6 Data cleaning
Data cleaning
Chapter 7 Metabolite annotation
1 Databases for metID
2 In-house MS2 database
3 Public databases
4 Public databases download
5 Metabolite annotation: An example
6 Identify single peak
Chapter 8 Statistical analysis
Statistical analysis
Chapter 9 Pathway enrichment
Pathway enrichment
Chapter 10 Whole workflow using tidymass
Whole workflow using tidymass
Chapter 11 Some function in tidymass
Formula function
Chapter 12 TidyMass Shiny Application
TidyMass Shiny Application
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Chapter 12 TidyMass Shiny Application
TidyMass Shiny Application
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