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Getting Started with the peakPantheR package10 months ago
Overview | Installation | Getting Started | Input Data | MS files | Expected regions of interest | Preparing input for the graphical user interface | peakPantheRAnnotation .RData | CSV file input | Targeted features | Files to process and spectra metadata (optional) | Feature meatadata (optional) | See Also | Session Information | References
peakPantheR 1.27.0Arnaud Wolfer getting-started.Rmd
Parallel Annotation10 months ago
Introduction | Abbreviations | Parallel Annotation Concept | Parallel Annotation Example | Input Data | Initialise and Run Parallel Annotation | Process Parallel Annotation Results | Retention time correction | New Initialisation with Updated Parameters to be Applied to All Study Samples | Load new fit parameters | Add new samples to process | Run Final Parallel Annotation | Output final results | See Also | Session Information
peakPantheR 1.27.0Arnaud Wolfer parallel-annotation.Rmd
peakPantheR Graphical User Interface10 months ago
Introduction | Abbreviations | Example Data | Getting Started | Graphical User Interface | Import | Run Annotation | Diagnostic: plot & update | View results | Export | Final Note | See Also | Session Information
peakPantheR 1.27.0Arnaud WolferpeakPantheR-GUI.Rmd
Real Time Annotation10 months ago
Introduction | Abbreviations | Real Time Annotation Concept | Real Time Annotation Example | Input Data | Run Single File Annotation | See Also | Session Information
peakPantheR 1.27.0Arnaud Wolfer real-time-annotation.Rmd
Advanced command line functions7 years ago
Preparing input data | DF search functions | Fitting, Confidence bands and plotting | P-values calculation | See Also
santaR 1.2.4Arnaud Wolferadvanced-command-line-functions.Rmd
Automated command line analysis7 years ago
Parallel processing | Automated Reporting | Save results for GUI | See Also
santaR 1.2.4Arnaud Wolferautomated-command-line.Rmd
Getting Started with the santaR package7 years ago
Installation | Overview | Getting Started | Further Reading
santaR 1.2.4Arnaud Wolfergetting-started.Rmd
How to prepare input data for santaR7 years ago
Data format | Introducing the dataset 'acuteInflammation' | Preparing the csv input for the graphical user interface | See Also
santaR 1.2.4Arnaud Wolferprepare-input-data.Rmd
Plotting options7 years ago
Basic plot | Adding options | Updating plot with ggplot2 grammar | Multiplots | See Also
santaR 1.2.4Arnaud Wolferplotting-options.Rmd
santaR Theoretical Background7 years ago
Concept of Functional Data Analysis | Main hypothesis | Signal extraction using splines | Group mean curve fitting | Intra-class variability (confidence bands on the group mean curves) | Detection of significantly altered time-trajectories | See Also
santaR 1.2.4Arnaud Wolfertheoretical-background.Rmd
Selecting an optimal number of degrees of freedom7 years ago
Intuitive parametrisation of smoothing | Automated model assessment and selection approaches | Latent time-trajectories for df selection | Smoothness and experimental design | See Also
santaR 1.2.4Arnaud Wolferselecting-optimal-df.Rmd
santaR: Graphical user interface8 years ago
santaR 1.2.4Arnaud Wolfer santaR-GUI.pdf.asis