lipidr-package {lipidr} | R Documentation

## Analysis workflow for targeted lipidomics

### Description

`lipidr` implements a series of functions to facilitate inspection, analysis and visualization of targeted lipidomics datasets. `lipidr` takes exported Skyline CSV as input, allowing for multiple methods to be analyzed together.

### Details

`lipidr` represents Skyline files as SummarizedExperiment objects, which can easily be integrated with a wide variety of Bioconductor packages. Sample annotations, such as sample group or other clinical information can be loaded. `lipidr` generates various plots, such as PCA score plots and box plots, for quality control of samples and measured lipids. Normalization methods with and without internal standards are also supported.

Differential analysis can be performed using any of the loaded clinical variables, which can be readily visualized as volcano plots. A novel lipid set enrichment analysis (LSEA) is implemented to detect preferential enrichment of certain lipid classes, chain lengths or saturation patterns. Plots for the visualization of enrichment results are also implemented.

### Author(s)

Ahmed Mohamed ahmed.mohamed@qimrberghofer.edu.au

[Package lipidr version 2.0.0 Index]