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DIAgui: a Shiny application to process the output from DIA-NN
Marc-Antoine Gerault1,2, Luc Camoin1, Samuel Granjeaud1
1Aix-Marseille University, INSERM, CNRS, Institut Paoli-Calmettes, CRCM, Marseille Protéomique, Marseille F-13009, France.
Bioinformatics Advances
|January 22, 2024
Summary
DIAgui simplifies data analysis for DIA-NN software users with an R package. It offers multiple quantification methods and user-friendly visualization tools for mass spectrometry results.
Area of Science:
- Proteomics
- Bioinformatics
- Computational Biology
Background:
- Data processing for DIA-NN software can be complex.
- Standardized analysis and visualization tools are needed for DIA mass spectrometry data.
Purpose of the Study:
- To develop an R package (DIAgui) that simplifies the processing of DIA-NN report files.
- To provide multiple quantification strategies and integrated visualization tools for mass spectrometry data analysis.
Main Methods:
- Development of an R package with a Shiny application interface.
- Integration of MaxLFQ, Top3, and iBAQ algorithms for quantification.
- Implementation of visualization and statistical analysis tools.
Main Results:
- DIAgui facilitates the quantification of precursors, peptides, proteins, and genes.
- The package offers Top3 and iBAQ quantification, along with peptide counts.
- Generated files are ready for interpretation, featuring visualization and statistical analysis.
Conclusions:
- DIAgui provides a user-friendly solution for processing DIA-NN results.
- The package enhances the accessibility and interpretability of mass spectrometry data analysis.
